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

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 8YPT entry

There are 5 chains in PDB entry 8YPT (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	ASN 1100
D	ASP 115	ASN 1100
E	MET 1	CYS 76

There are 98 helices in PDB entry 8YPT. 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	60	Right-handed alpha
Helix 3	AA3	A	70	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	196	Right-handed alpha
Helix 7	AA7	A	210	226	Right-handed alpha
Helix 8	AA8	A	227	242	Right-handed alpha
Helix 9	AA9	A	273	278	Right-handed alpha
Helix 10	AB1	A	283	290	Right-handed alpha
Helix 11	AB2	A	294	301	Right-handed alpha
Helix 12	AB3	A	317	321	Right-handed 310
Helix 13	AB4	A	326	340	Right-handed alpha
Helix 14	AB5	A	342	358	Right-handed alpha
Helix 15	AB6	A	359	371	Right-handed alpha
Helix 16	AB7	A	374	390	Right-handed alpha
Helix 17	AB8	A	395	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	20	24	Right-handed 310
Helix 21	AC3	B	35	49	Right-handed alpha
Helix 22	AC4	B	53	60	Right-handed alpha
Helix 23	AC5	B	69	81	Right-handed alpha
Helix 24	AC6	B	95	112	Right-handed alpha
Helix 25	AC7	B	113	116	Right-handed 310
Helix 26	AC8	B	120	147	Right-handed alpha
Helix 27	AC9	B	178	196	Right-handed alpha
Helix 28	AD1	B	210	226	Right-handed alpha
Helix 29	AD2	B	227	242	Right-handed alpha
Helix 30	AD3	B	273	279	Right-handed alpha
Helix 31	AD4	B	283	288	Right-handed alpha
Helix 32	AD5	B	295	301	Right-handed alpha
Helix 33	AD6	B	317	321	Right-handed 310
Helix 34	AD7	B	326	340	Right-handed alpha
Helix 35	AD8	B	342	356	Right-handed alpha
Helix 36	AD9	B	359	371	Right-handed alpha
Helix 37	AE1	B	374	390	Right-handed alpha
Helix 38	AE2	B	395	404	Right-handed alpha
Helix 39	AE3	B	423	427	Right-handed 310
Helix 40	AE4	B	431	438	Right-handed alpha
Helix 41	AE5	C	128	130	Right-handed 310
Helix 42	AE6	C	140	145	Right-handed alpha
Helix 43	AE7	C	149	153	Right-handed 310
Helix 44	AE8	C	209	216	Right-handed 310
Helix 45	AE9	C	219	224	Right-handed 310
Helix 46	AF1	C	225	227	Right-handed 310
Helix 47	AF2	C	237	242	Right-handed alpha
Helix 48	AF3	C	243	248	Right-handed 310
Helix 49	AF4	C	280	285	Right-handed 310
Helix 50	AF5	C	288	302	Right-handed alpha
Helix 51	AF6	C	312	320	Right-handed alpha
Helix 52	AF7	C	322	329	Right-handed alpha
Helix 53	AF8	C	335	348	Right-handed alpha
Helix 54	AF9	C	351	356	Right-handed alpha
Helix 55	AG1	C	438	443	Right-handed alpha
Helix 56	AG2	C	476	483	Right-handed alpha
Helix 57	AG3	C	530	540	Right-handed alpha
Helix 58	AG4	C	625	632	Right-handed alpha
Helix 59	AG5	C	694	704	Right-handed 310
Helix 60	AG6	C	799	803	Right-handed 310
Helix 61	AG7	C	895	901	Right-handed alpha
Helix 62	AG8	C	917	922	Right-handed alpha
Helix 63	AG9	C	980	986	Right-handed 310
Helix 64	AH1	C	1005	1015	Right-handed alpha
Helix 65	AH2	C	1016	1021	Right-handed alpha
Helix 66	AH3	C	1022	1024	Right-handed 310
Helix 67	AH4	C	1044	1052	Right-handed alpha
Helix 68	AH5	C	1077	1081	Right-handed 310
Helix 69	AH6	D	128	130	Right-handed 310
Helix 70	AH7	D	140	145	Right-handed alpha
Helix 71	AH8	D	149	153	Right-handed 310
Helix 72	AH9	D	209	213	Right-handed 310
Helix 73	AI1	D	219	224	Right-handed 310
Helix 74	AI2	D	225	227	Right-handed 310
Helix 75	AI3	D	237	242	Right-handed alpha
Helix 76	AI4	D	243	248	Right-handed 310
Helix 77	AI5	D	280	285	Right-handed 310
Helix 78	AI6	D	288	302	Right-handed alpha
Helix 79	AI7	D	311	320	Right-handed alpha
Helix 80	AI8	D	323	330	Right-handed alpha
Helix 81	AI9	D	331	334	Right-handed 310
Helix 82	AJ1	D	335	348	Right-handed alpha
Helix 83	AJ2	D	438	443	Right-handed alpha
Helix 84	AJ3	D	476	483	Right-handed alpha
Helix 85	AJ4	D	530	540	Right-handed alpha
Helix 86	AJ5	D	676	680	Right-handed 310
Helix 87	AJ6	D	694	703	Right-handed 310
Helix 88	AJ7	D	799	803	Right-handed 310
Helix 89	AJ8	D	895	901	Right-handed alpha
Helix 90	AJ9	D	917	922	Right-handed alpha
Helix 91	AK1	D	980	986	Right-handed 310
Helix 92	AK2	D	1005	1015	Right-handed alpha
Helix 93	AK3	D	1016	1021	Right-handed alpha
Helix 94	AK4	D	1022	1024	Right-handed 310
Helix 95	AK5	D	1044	1051	Right-handed alpha
Helix 96	AK6	D	1077	1081	Right-handed 310
Helix 97	AK7	E	22	34	Right-handed alpha
Helix 98	AK8	E	37	39	Right-handed 310

There are 26 sheets in PDB entry 8YPT. 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,

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 21 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	847	850	first strand
Strand 2	C	806	829	anti-parallel
Strand 3	C	778	797	anti-parallel
Strand 4	C	761	773	anti-parallel
Strand 5	C	706	718	anti-parallel
Strand 6	C	686	692	anti-parallel
Strand 7	C	659	670	anti-parallel
Strand 8	C	635	655	anti-parallel
Strand 9	C	586	611	anti-parallel
Strand 10	C	558	582	anti-parallel
Strand 11	C	507	526	anti-parallel
Strand 12	C	484	501	anti-parallel
Strand 13	C	413	428	anti-parallel
Strand 14	C	395	407	anti-parallel
Strand 15	C	376	388	anti-parallel
Strand 16	C	360	372	anti-parallel
Strand 17	C	263	276	anti-parallel
Strand 18	C	1092	1099	anti-parallel
Strand 19	C	1056	1063	anti-parallel
Strand 20	C	1026	1042	anti-parallel
Strand 21	C	1067	1069	anti-parallel

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There are 7 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	847	850	first strand
Strand 2	C	806	829	anti-parallel
Strand 3	C	833	844	anti-parallel
Strand 4	C	935	945	anti-parallel
Strand 5	C	948	963	anti-parallel
Strand 6	C	1026	1042	anti-parallel
Strand 7	C	1067	1069	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	541	544	first strand
Strand 2	C	549	552	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	730	736	first strand
Strand 2	C	744	751	anti-parallel

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There are 2 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	869	872	first strand
Strand 2	C	926	930	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	875	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 AB9 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 AC1 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 AC2 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 AC3 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	1056	1063	anti-parallel
Strand 4	D	1092	1099	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	501	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	692	anti-parallel
Strand 17	D	706	718	anti-parallel
Strand 18	D	762	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 AC4 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 AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	730	734	first strand
Strand 2	D	746	751	anti-parallel

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There are 2 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	869	872	first strand
Strand 2	D	926	930	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	875	878	first strand
Strand 2	D	884	887	anti-parallel
Strand 3	D	893	894	anti-parallel

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There are 5 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	12	16	first strand
Strand 2	E	2	6	anti-parallel
Strand 3	E	66	71	parallel
Strand 4	E	41	45	anti-parallel
Strand 5	E	48	49	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: 8YPT

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