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

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 5AYD entry

There are 6 chains in PDB entry 5AYD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	VAL 335
B	MET 1	VAL 335
C	MET 1	VAL 335
D	MET 1	VAL 335
E	MET 1	VAL 335
F	MET 1	VAL 335

There are 24 helices in PDB entry 5AYD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	101	105	Right-handed 310
Helix 2	AA2	A	214	218	Right-handed 310
Helix 3	AA3	A	278	283	Right-handed alpha
Helix 4	AA4	A	322	332	Right-handed alpha
Helix 5	AA5	B	101	105	Right-handed 310
Helix 6	AA6	B	214	218	Right-handed 310
Helix 7	AA7	B	278	283	Right-handed alpha
Helix 8	AA8	B	322	332	Right-handed alpha
Helix 9	AA9	C	101	105	Right-handed 310
Helix 10	AB1	C	214	218	Right-handed 310
Helix 11	AB2	C	278	283	Right-handed alpha
Helix 12	AB3	C	322	332	Right-handed alpha
Helix 13	AB4	D	101	105	Right-handed 310
Helix 14	AB5	D	214	218	Right-handed 310
Helix 15	AB6	D	278	283	Right-handed alpha
Helix 16	AB7	D	322	332	Right-handed alpha
Helix 17	AB8	E	101	105	Right-handed 310
Helix 18	AB9	E	214	218	Right-handed 310
Helix 19	AC1	E	278	283	Right-handed alpha
Helix 20	AC2	E	322	332	Right-handed alpha
Helix 21	AC3	F	101	105	Right-handed 310
Helix 22	AC4	F	214	218	Right-handed 310
Helix 23	AC5	F	278	283	Right-handed alpha
Helix 24	AC6	F	322	332	Right-handed alpha

There are 36 sheets in PDB entry 5AYD. 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,

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	28	29	first strand
Strand 2	A	314	321	anti-parallel
Strand 3	A	303	310	anti-parallel
Strand 4	A	290	297	anti-parallel

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There are 4 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	44	57	first strand
Strand 2	A	60	70	anti-parallel
Strand 3	A	75	82	anti-parallel
Strand 4	A	89	90	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	A	98	99	first strand
Strand 2	A	150	152	parallel
Strand 3	A	136	144	anti-parallel
Strand 4	A	124	133	anti-parallel
Strand 5	A	113	121	anti-parallel

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There are 4 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	161	166	first strand
Strand 2	A	175	181	anti-parallel
Strand 3	A	192	197	anti-parallel
Strand 4	A	204	210	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	220	223	first strand
Strand 2	A	233	244	anti-parallel
Strand 3	A	228	230	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	A	220	223	first strand
Strand 2	A	233	244	anti-parallel
Strand 3	A	247	257	anti-parallel
Strand 4	A	265	268	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	B	28	29	first strand
Strand 2	B	314	321	anti-parallel
Strand 3	B	303	310	anti-parallel
Strand 4	B	290	297	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	B	44	54	first strand
Strand 2	B	62	70	anti-parallel
Strand 3	B	75	82	anti-parallel
Strand 4	B	88	90	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	98	99	first strand
Strand 2	B	151	152	parallel
Strand 3	B	136	144	anti-parallel
Strand 4	B	124	133	anti-parallel
Strand 5	B	113	121	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	161	166	first strand
Strand 2	B	175	181	anti-parallel
Strand 3	B	192	197	anti-parallel
Strand 4	B	204	210	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	B	220	223	first strand
Strand 2	B	233	244	anti-parallel
Strand 3	B	228	230	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	220	223	first strand
Strand 2	B	233	244	anti-parallel
Strand 3	B	247	257	anti-parallel
Strand 4	B	265	268	anti-parallel

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There are 4 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	28	29	first strand
Strand 2	C	314	321	anti-parallel
Strand 3	C	303	310	anti-parallel
Strand 4	C	290	297	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	C	44	57	first strand
Strand 2	C	60	70	anti-parallel
Strand 3	C	75	82	anti-parallel
Strand 4	C	89	90	anti-parallel

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There are 5 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	98	99	first strand
Strand 2	C	151	152	parallel
Strand 3	C	136	144	anti-parallel
Strand 4	C	124	133	anti-parallel
Strand 5	C	113	121	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	161	166	first strand
Strand 2	C	175	181	anti-parallel
Strand 3	C	192	197	anti-parallel
Strand 4	C	204	210	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	220	223	first strand
Strand 2	C	233	243	anti-parallel
Strand 3	C	228	230	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	220	223	first strand
Strand 2	C	233	243	anti-parallel
Strand 3	C	248	257	anti-parallel
Strand 4	C	265	268	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	D	28	29	first strand
Strand 2	D	314	321	anti-parallel
Strand 3	D	303	310	anti-parallel
Strand 4	D	290	297	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	44	54	first strand
Strand 2	D	62	70	anti-parallel
Strand 3	D	75	82	anti-parallel
Strand 4	D	89	90	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	99	first strand
Strand 2	D	151	152	parallel
Strand 3	D	136	144	anti-parallel
Strand 4	D	124	133	anti-parallel
Strand 5	D	113	121	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	161	166	first strand
Strand 2	D	175	181	anti-parallel
Strand 3	D	192	197	anti-parallel
Strand 4	D	204	210	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	220	223	first strand
Strand 2	D	233	244	anti-parallel
Strand 3	D	228	230	anti-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	D	220	223	first strand
Strand 2	D	233	244	anti-parallel
Strand 3	D	247	257	anti-parallel
Strand 4	D	265	268	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	28	29	first strand
Strand 2	E	314	321	anti-parallel
Strand 3	E	303	310	anti-parallel
Strand 4	E	290	297	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	44	57	first strand
Strand 2	E	60	70	anti-parallel
Strand 3	E	75	82	anti-parallel
Strand 4	E	89	90	anti-parallel

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There are 5 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	98	99	first strand
Strand 2	E	151	152	parallel
Strand 3	E	136	144	anti-parallel
Strand 4	E	124	133	anti-parallel
Strand 5	E	113	121	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	E	161	166	first strand
Strand 2	E	175	181	anti-parallel
Strand 3	E	192	197	anti-parallel
Strand 4	E	204	210	anti-parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	220	223	first strand
Strand 2	E	233	244	anti-parallel
Strand 3	E	228	230	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	E	220	223	first strand
Strand 2	E	233	244	anti-parallel
Strand 3	E	247	257	anti-parallel
Strand 4	E	265	268	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	F	28	29	first strand
Strand 2	F	314	321	anti-parallel
Strand 3	F	303	310	anti-parallel
Strand 4	F	290	297	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	44	54	first strand
Strand 2	F	62	70	anti-parallel
Strand 3	F	75	82	anti-parallel
Strand 4	F	89	90	anti-parallel

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There are 5 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	98	99	first strand
Strand 2	F	151	152	parallel
Strand 3	F	136	144	anti-parallel
Strand 4	F	124	133	anti-parallel
Strand 5	F	113	121	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	F	161	166	first strand
Strand 2	F	175	181	anti-parallel
Strand 3	F	192	197	anti-parallel
Strand 4	F	204	210	anti-parallel

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There are 3 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	220	223	first strand
Strand 2	F	233	243	anti-parallel
Strand 3	F	228	230	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	F	220	223	first strand
Strand 2	F	233	243	anti-parallel
Strand 3	F	248	257	anti-parallel
Strand 4	F	265	268	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: 5AYD

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