Analysis of interatomic Contacts of Structural Units in PDB entry:
8YY4

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 8YY4 entry

There are 4 chains in PDB entry 8YY4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	VAL 437
B	MET 1	ALA 428
C	LYS 325	SER 684
D	LYS 325	SER 669

There are 63 helices in PDB entry 8YY4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	10	28	Right-handed alpha
Helix 2	AA2	A	48	51	Right-handed 310
Helix 3	AA3	A	71	81	Right-handed alpha
Helix 4	AA4	A	102	109	Right-handed alpha
Helix 5	AA5	A	110	113	Right-handed 310
Helix 6	AA6	A	114	129	Right-handed alpha
Helix 7	AA7	A	143	161	Right-handed alpha
Helix 8	AA8	A	182	193	Right-handed alpha
Helix 9	AA9	A	205	216	Right-handed alpha
Helix 10	AB1	A	223	244	Right-handed alpha
Helix 11	AB2	A	251	260	Right-handed alpha
Helix 12	AB3	A	278	284	Right-handed alpha
Helix 13	AB4	A	287	297	Right-handed alpha
Helix 14	AB5	A	306	310	Right-handed 310
Helix 15	AB6	A	324	337	Right-handed alpha
Helix 16	AB7	A	383	401	Right-handed alpha
Helix 17	AB8	A	404	410	Right-handed alpha
Helix 18	AB9	A	414	437	Right-handed alpha
Helix 19	AC1	B	9	29	Right-handed alpha
Helix 20	AC2	B	40	47	Right-handed alpha
Helix 21	AC3	B	70	79	Right-handed alpha
Helix 22	AC4	B	86	88	Right-handed 310
Helix 23	AC5	B	100	107	Right-handed alpha
Helix 24	AC6	B	108	127	Right-handed alpha
Helix 25	AC7	B	142	159	Right-handed alpha
Helix 26	AC8	B	180	196	Right-handed alpha
Helix 27	AC9	B	203	214	Right-handed alpha
Helix 28	AD1	B	221	242	Right-handed alpha
Helix 29	AD2	B	249	256	Right-handed alpha
Helix 30	AD3	B	285	294	Right-handed alpha
Helix 31	AD4	B	295	299	Right-handed 310
Helix 32	AD5	B	304	308	Right-handed 310
Helix 33	AD6	B	322	337	Right-handed alpha
Helix 34	AD7	B	373	391	Right-handed alpha
Helix 35	AD8	B	395	400	Right-handed alpha
Helix 36	AD9	B	404	428	Right-handed alpha
Helix 37	AE1	C	326	346	Right-handed alpha
Helix 38	AE2	C	359	366	Right-handed alpha
Helix 39	AE3	C	385	391	Right-handed alpha
Helix 40	AE4	C	407	413	Right-handed alpha
Helix 41	AE5	C	414	424	Right-handed alpha
Helix 42	AE6	C	439	444	Right-handed alpha
Helix 43	AE7	C	452	471	Right-handed alpha
Helix 44	AE8	C	524	542	Right-handed alpha
Helix 45	AE9	C	548	553	Right-handed 310
Helix 46	AF1	C	592	615	Right-handed alpha
Helix 47	AF2	C	625	631	Right-handed alpha
Helix 48	AF3	C	631	636	Right-handed alpha
Helix 49	AF4	C	650	652	Right-handed 310
Helix 50	AF5	C	653	669	Right-handed alpha
Helix 51	AF6	D	326	347	Right-handed alpha
Helix 52	AF7	D	384	389	Right-handed alpha
Helix 53	AF8	D	407	414	Right-handed alpha
Helix 54	AF9	D	415	424	Right-handed alpha
Helix 55	AG1	D	439	445	Right-handed alpha
Helix 56	AG2	D	452	469	Right-handed alpha
Helix 57	AG3	D	524	540	Right-handed alpha
Helix 58	AG4	D	549	553	Right-handed 310
Helix 59	AG5	D	600	615	Right-handed alpha
Helix 60	AG6	D	621	624	Right-handed 310
Helix 61	AG7	D	625	631	Right-handed alpha
Helix 62	AG8	D	632	636	Right-handed 310
Helix 63	AG9	D	653	669	Right-handed alpha

There are 14 sheets in PDB entry 8YY4. 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,

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	93	94	first strand
Strand 2	A	65	69	parallel
Strand 3	A	2	9	parallel
Strand 4	A	131	138	parallel
Strand 5	A	165	168	parallel
Strand 6	A	200	201	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	53	55	first strand
Strand 2	A	61	63	anti-parallel

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There are 4 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	272	273	first strand
Strand 2	A	374	381	anti-parallel
Strand 3	A	312	320	anti-parallel
Strand 4	A	353	354	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	B	90	92	first strand
Strand 2	B	63	67	parallel
Strand 3	B	3	8	parallel
Strand 4	B	130	136	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	B	51	55	first strand
Strand 2	B	58	61	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	199	200	first strand
Strand 2	B	265	271	parallel
Strand 3	B	365	371	anti-parallel
Strand 4	B	310	313	anti-parallel

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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	400	402	first strand
Strand 2	C	349	355	parallel
Strand 3	C	639	647	parallel
Strand 4	C	427	433	parallel
Strand 5	C	570	580	parallel
Strand 6	C	554	565	anti-parallel
Strand 7	C	474	485	anti-parallel
Strand 8	C	519	521	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	488	490	first strand
Strand 2	C	474	485	anti-parallel
Strand 3	C	554	565	anti-parallel
Strand 4	C	570	580	anti-parallel
Strand 5	C	679	681	anti-parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	371	374	first strand
Strand 2	C	377	379	anti-parallel
Strand 3	C	395	397	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	C	502	504	first strand
Strand 2	C	512	514	anti-parallel

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There are 8 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	400	402	first strand
Strand 2	D	350	355	parallel
Strand 3	D	640	647	parallel
Strand 4	D	427	433	parallel
Strand 5	D	572	580	parallel
Strand 6	D	554	565	anti-parallel
Strand 7	D	473	484	anti-parallel
Strand 8	D	489	491	anti-parallel

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There are 8 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	400	402	first strand
Strand 2	D	350	355	parallel
Strand 3	D	640	647	parallel
Strand 4	D	427	433	parallel
Strand 5	D	572	580	parallel
Strand 6	D	554	565	anti-parallel
Strand 7	D	473	484	anti-parallel
Strand 8	D	520	522	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	369	372	first strand
Strand 2	D	377	381	anti-parallel
Strand 3	D	395	397	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	D	502	504	first strand
Strand 2	D	512	514	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: 8YY4

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YY4