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

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 8YPU entry

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

Chain ID	Initial residue	Terminal residue
A	CYS 19	LEU 441
B	CYS 19	LEU 441
C	ASP 115	PHE 1101
D	ASP 115	PHE 1101

There are 82 helices in PDB entry 8YPU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	35	49	Right-handed alpha
Helix 2	AA2	A	52	59	Right-handed alpha
Helix 3	AA3	A	72	81	Right-handed alpha
Helix 4	AA4	A	95	112	Right-handed alpha
Helix 5	AA5	A	120	147	Right-handed alpha
Helix 6	AA6	A	178	194	Right-handed alpha
Helix 7	AA7	A	210	226	Right-handed alpha
Helix 8	AA8	A	227	240	Right-handed alpha
Helix 9	AA9	A	273	279	Right-handed alpha
Helix 10	AB1	A	283	288	Right-handed alpha
Helix 11	AB2	A	294	300	Right-handed alpha
Helix 12	AB3	A	326	339	Right-handed alpha
Helix 13	AB4	A	342	350	Right-handed alpha
Helix 14	AB5	A	353	358	Right-handed alpha
Helix 15	AB6	A	359	372	Right-handed alpha
Helix 16	AB7	A	374	390	Right-handed alpha
Helix 17	AB8	A	396	404	Right-handed alpha
Helix 18	AB9	A	423	427	Right-handed 310
Helix 19	AC1	A	431	438	Right-handed alpha
Helix 20	AC2	B	35	49	Right-handed alpha
Helix 21	AC3	B	52	59	Right-handed alpha
Helix 22	AC4	B	72	81	Right-handed alpha
Helix 23	AC5	B	95	112	Right-handed alpha
Helix 24	AC6	B	113	116	Right-handed 310
Helix 25	AC7	B	120	147	Right-handed alpha
Helix 26	AC8	B	178	194	Right-handed alpha
Helix 27	AC9	B	210	226	Right-handed alpha
Helix 28	AD1	B	227	240	Right-handed alpha
Helix 29	AD2	B	273	279	Right-handed alpha
Helix 30	AD3	B	283	288	Right-handed alpha
Helix 31	AD4	B	294	300	Right-handed alpha
Helix 32	AD5	B	326	339	Right-handed alpha
Helix 33	AD6	B	342	350	Right-handed alpha
Helix 34	AD7	B	353	358	Right-handed alpha
Helix 35	AD8	B	359	372	Right-handed alpha
Helix 36	AD9	B	374	390	Right-handed alpha
Helix 37	AE1	B	396	404	Right-handed alpha
Helix 38	AE2	B	423	427	Right-handed 310
Helix 39	AE3	B	431	438	Right-handed alpha
Helix 40	AE4	C	128	130	Right-handed 310
Helix 41	AE5	C	209	216	Right-handed 310
Helix 42	AE6	C	219	224	Right-handed 310
Helix 43	AE7	C	237	242	Right-handed alpha
Helix 44	AE8	C	243	248	Right-handed 310
Helix 45	AE9	C	288	302	Right-handed alpha
Helix 46	AF1	C	312	319	Right-handed alpha
Helix 47	AF2	C	322	329	Right-handed alpha
Helix 48	AF3	C	335	347	Right-handed alpha
Helix 49	AF4	C	351	357	Right-handed alpha
Helix 50	AF5	C	438	443	Right-handed alpha
Helix 51	AF6	C	476	483	Right-handed alpha
Helix 52	AF7	C	530	539	Right-handed alpha
Helix 53	AF8	C	627	632	Right-handed alpha
Helix 54	AF9	C	895	901	Right-handed alpha
Helix 55	AG1	C	917	922	Right-handed alpha
Helix 56	AG2	C	980	986	Right-handed 310
Helix 57	AG3	C	1005	1015	Right-handed alpha
Helix 58	AG4	C	1016	1021	Right-handed alpha
Helix 59	AG5	C	1022	1024	Right-handed 310
Helix 60	AG6	C	1044	1051	Right-handed alpha
Helix 61	AG7	D	128	130	Right-handed 310
Helix 62	AG8	D	209	216	Right-handed 310
Helix 63	AG9	D	219	224	Right-handed 310
Helix 64	AH1	D	237	242	Right-handed alpha
Helix 65	AH2	D	243	248	Right-handed 310
Helix 66	AH3	D	288	302	Right-handed alpha
Helix 67	AH4	D	312	321	Right-handed alpha
Helix 68	AH5	D	322	329	Right-handed alpha
Helix 69	AH6	D	335	347	Right-handed alpha
Helix 70	AH7	D	351	357	Right-handed alpha
Helix 71	AH8	D	438	443	Right-handed alpha
Helix 72	AH9	D	476	483	Right-handed alpha
Helix 73	AI1	D	530	539	Right-handed alpha
Helix 74	AI2	D	627	632	Right-handed alpha
Helix 75	AI3	D	699	704	Right-handed 310
Helix 76	AI4	D	895	901	Right-handed alpha
Helix 77	AI5	D	917	922	Right-handed alpha
Helix 78	AI6	D	980	986	Right-handed 310
Helix 79	AI7	D	1005	1015	Right-handed alpha
Helix 80	AI8	D	1016	1021	Right-handed alpha
Helix 81	AI9	D	1022	1024	Right-handed 310
Helix 82	AJ1	D	1044	1051	Right-handed alpha

There are 24 sheets in PDB entry 8YPU. 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,

There are 2 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	65	66	first strand
Strand 2	A	280	281	anti-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	159	161	first strand
Strand 2	A	176	177	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	264	266	first strand
Strand 2	A	324	325	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	408	412	first strand
Strand 2	A	415	419	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	B	65	66	first strand
Strand 2	B	280	281	anti-parallel

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There are 2 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	159	161	first strand
Strand 2	B	176	177	anti-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	264	266	first strand
Strand 2	B	324	325	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	408	412	first strand
Strand 2	B	415	419	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	C	117	119	first strand
Strand 2	C	124	126	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	C	134	138	first strand
Strand 2	C	229	235	anti-parallel
Strand 3	C	252	257	anti-parallel
Strand 4	C	191	194	parallel
Strand 5	C	197	198	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	C	161	165	first strand
Strand 2	C	174	178	anti-parallel

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There are 24 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	1067	1069	first strand
Strand 2	C	1026	1042	anti-parallel
Strand 3	C	1055	1063	anti-parallel
Strand 4	C	1092	1101	anti-parallel
Strand 5	C	263	276	anti-parallel
Strand 6	C	360	372	anti-parallel
Strand 7	C	376	388	anti-parallel
Strand 8	C	395	407	anti-parallel
Strand 9	C	413	428	anti-parallel
Strand 10	C	484	502	anti-parallel
Strand 11	C	507	526	anti-parallel
Strand 12	C	558	582	anti-parallel
Strand 13	C	586	611	anti-parallel
Strand 14	C	635	655	anti-parallel
Strand 15	C	659	670	anti-parallel
Strand 16	C	686	691	anti-parallel
Strand 17	C	706	718	anti-parallel
Strand 18	C	761	773	anti-parallel
Strand 19	C	778	797	anti-parallel
Strand 20	C	806	829	anti-parallel
Strand 21	C	833	850	anti-parallel
Strand 22	C	935	945	anti-parallel
Strand 23	C	948	963	anti-parallel
Strand 24	C	1026	1042	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	541	544	first strand
Strand 2	C	549	552	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	730	739	first strand
Strand 2	C	742	751	anti-parallel

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There are 2 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	869	872	first strand
Strand 2	C	926	930	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	C	877	878	first strand
Strand 2	C	884	887	anti-parallel
Strand 3	C	893	894	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	117	119	first strand
Strand 2	D	124	126	anti-parallel

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There are 5 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	134	138	first strand
Strand 2	D	229	235	anti-parallel
Strand 3	D	252	257	anti-parallel
Strand 4	D	191	194	parallel
Strand 5	D	197	198	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	161	165	first strand
Strand 2	D	174	178	anti-parallel

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There are 24 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	1067	1069	first strand
Strand 2	D	1026	1042	anti-parallel
Strand 3	D	1055	1063	anti-parallel
Strand 4	D	1092	1101	anti-parallel
Strand 5	D	263	276	anti-parallel
Strand 6	D	360	372	anti-parallel
Strand 7	D	376	388	anti-parallel
Strand 8	D	395	407	anti-parallel
Strand 9	D	413	428	anti-parallel
Strand 10	D	484	502	anti-parallel
Strand 11	D	507	526	anti-parallel
Strand 12	D	558	582	anti-parallel
Strand 13	D	586	611	anti-parallel
Strand 14	D	635	655	anti-parallel
Strand 15	D	659	670	anti-parallel
Strand 16	D	686	691	anti-parallel
Strand 17	D	706	718	anti-parallel
Strand 18	D	761	773	anti-parallel
Strand 19	D	778	797	anti-parallel
Strand 20	D	806	829	anti-parallel
Strand 21	D	833	850	anti-parallel
Strand 22	D	935	945	anti-parallel
Strand 23	D	948	963	anti-parallel
Strand 24	D	1026	1042	anti-parallel

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There are 2 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	541	544	first strand
Strand 2	D	549	552	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	D	730	739	first strand
Strand 2	D	742	751	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	D	869	872	first strand
Strand 2	D	926	930	anti-parallel

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There are 3 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	877	878	first strand
Strand 2	D	884	887	anti-parallel
Strand 3	D	893	894	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: 8YPU

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