Analysis of interatomic Contacts of Structural Units in PDB entry:
8YF5

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 8YF5 entry

There are 5 chains in PDB entry 8YF5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 5	HIS 864
B	MET 1	ILE 381
C	ALA 5	GLU 867
D	MET 1	ASN 380
E	MET 1	ASP 130

There are 99 helices in PDB entry 8YF5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	5	14	Right-handed alpha
Helix 2	AA2	A	28	32	Right-handed 310
Helix 3	AA3	A	55	57	Right-handed 310
Helix 4	AA4	A	72	92	Right-handed alpha
Helix 5	AA5	A	106	129	Right-handed alpha
Helix 6	AA6	A	156	160	Right-handed 310
Helix 7	AA7	A	164	185	Right-handed alpha
Helix 8	AA8	A	186	189	Right-handed 310
Helix 9	AA9	A	203	217	Right-handed alpha
Helix 10	AB1	A	235	244	Right-handed alpha
Helix 11	AB2	A	254	259	Right-handed alpha
Helix 12	AB3	A	291	302	Right-handed alpha
Helix 13	AB4	A	312	327	Right-handed alpha
Helix 14	AB5	A	343	356	Right-handed alpha
Helix 15	AB6	A	370	407	Right-handed alpha
Helix 16	AB7	A	541	552	Right-handed alpha
Helix 17	AB8	A	555	581	Right-handed alpha
Helix 18	AB9	A	599	603	Right-handed 310
Helix 19	AC1	A	605	609	Right-handed 310
Helix 20	AC2	A	620	629	Right-handed alpha
Helix 21	AC3	A	630	634	Right-handed 310
Helix 22	AC4	A	641	647	Right-handed alpha
Helix 23	AC5	A	652	656	Right-handed 310
Helix 24	AC6	A	669	673	Right-handed 310
Helix 25	AC7	A	681	691	Right-handed alpha
Helix 26	AC8	A	692	696	Right-handed 310
Helix 27	AC9	A	697	704	Right-handed alpha
Helix 28	AD1	A	719	728	Right-handed alpha
Helix 29	AD2	A	812	819	Right-handed alpha
Helix 30	AD3	A	838	842	Right-handed 310
Helix 31	AD4	A	856	864	Right-handed alpha
Helix 32	AD5	B	48	54	Right-handed alpha
Helix 33	AD6	B	61	65	Right-handed 310
Helix 34	AD7	B	69	75	Right-handed alpha
Helix 35	AD8	B	76	91	Right-handed alpha
Helix 36	AD9	B	102	110	Right-handed alpha
Helix 37	AE1	B	135	148	Right-handed alpha
Helix 38	AE2	B	151	167	Right-handed alpha
Helix 39	AE3	B	172	176	Right-handed 310
Helix 40	AE4	B	177	183	Right-handed alpha
Helix 41	AE5	B	184	187	Right-handed 310
Helix 42	AE6	B	225	229	Right-handed alpha
Helix 43	AE7	B	241	261	Right-handed alpha
Helix 44	AE8	B	288	295	Right-handed alpha
Helix 45	AE9	B	306	326	Right-handed alpha
Helix 46	AF1	B	351	363	Right-handed alpha
Helix 47	AF2	B	364	380	Right-handed alpha
Helix 48	AF3	C	6	14	Right-handed alpha
Helix 49	AF4	C	54	59	Right-handed alpha
Helix 50	AF5	C	72	92	Right-handed alpha
Helix 51	AF6	C	106	128	Right-handed alpha
Helix 52	AF7	C	156	161	Right-handed 310
Helix 53	AF8	C	164	184	Right-handed alpha
Helix 54	AF9	C	185	189	Right-handed 310
Helix 55	AG1	C	203	218	Right-handed alpha
Helix 56	AG2	C	234	243	Right-handed alpha
Helix 57	AG3	C	291	302	Right-handed alpha
Helix 58	AG4	C	312	327	Right-handed alpha
Helix 59	AG5	C	339	342	Right-handed 310
Helix 60	AG6	C	343	356	Right-handed alpha
Helix 61	AG7	C	357	359	Right-handed 310
Helix 62	AG8	C	370	378	Right-handed alpha
Helix 63	AG9	C	381	383	Right-handed 310
Helix 64	AH1	C	384	406	Right-handed alpha
Helix 65	AH2	C	541	552	Right-handed alpha
Helix 66	AH3	C	555	581	Right-handed alpha
Helix 67	AH4	C	599	603	Right-handed 310
Helix 68	AH5	C	620	629	Right-handed alpha
Helix 69	AH6	C	638	647	Right-handed alpha
Helix 70	AH7	C	652	656	Right-handed 310
Helix 71	AH8	C	681	690	Right-handed alpha
Helix 72	AH9	C	697	703	Right-handed alpha
Helix 73	AI1	C	718	728	Right-handed alpha
Helix 74	AI2	C	810	819	Right-handed alpha
Helix 75	AI3	C	856	867	Right-handed alpha
Helix 76	AI4	D	48	54	Right-handed alpha
Helix 77	AI5	D	61	65	Right-handed 310
Helix 78	AI6	D	69	75	Right-handed alpha
Helix 79	AI7	D	76	91	Right-handed alpha
Helix 80	AI8	D	102	111	Right-handed alpha
Helix 81	AI9	D	135	149	Right-handed alpha
Helix 82	AJ1	D	150	167	Right-handed alpha
Helix 83	AJ2	D	172	176	Right-handed 310
Helix 84	AJ3	D	177	183	Right-handed alpha
Helix 85	AJ4	D	225	229	Right-handed alpha
Helix 86	AJ5	D	241	263	Right-handed alpha
Helix 87	AJ6	D	287	295	Right-handed alpha
Helix 88	AJ7	D	306	326	Right-handed alpha
Helix 89	AJ8	D	351	363	Right-handed alpha
Helix 90	AJ9	D	364	380	Right-handed alpha
Helix 91	AK1	E	4	14	Right-handed alpha
Helix 92	AK2	E	18	32	Right-handed alpha
Helix 93	AK3	E	35	50	Right-handed alpha
Helix 94	AK4	E	53	71	Right-handed alpha
Helix 95	AK5	E	73	82	Right-handed alpha
Helix 96	AK6	E	83	92	Right-handed alpha
Helix 97	AK7	E	93	95	Right-handed 310
Helix 98	AK8	E	96	113	Right-handed alpha
Helix 99	AK9	E	117	128	Right-handed alpha

There are 14 sheets in PDB entry 8YF5. 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 11 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	18	20	first strand
Strand 2	A	286	290	anti-parallel
Strand 3	A	249	253	anti-parallel
Strand 4	A	229	230	parallel
Strand 5	A	50	53	parallel
Strand 6	A	96	100	parallel
Strand 7	A	192	196	parallel
Strand 8	A	709	714	anti-parallel
Strand 9	A	781	787	anti-parallel
Strand 10	A	747	750	anti-parallel
Strand 11	A	734	736	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	364	365	first strand
Strand 2	A	368	369	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	662	663	first strand
Strand 2	A	674	675	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	759	760	first strand
Strand 2	A	776	777	anti-parallel

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There are 10 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	4	8	first strand
Strand 2	B	343	348	anti-parallel
Strand 3	B	331	336	anti-parallel
Strand 4	B	119	126	anti-parallel
Strand 5	B	129	134	anti-parallel
Strand 6	B	98	101	parallel
Strand 7	B	208	214	parallel
Strand 8	B	194	201	anti-parallel
Strand 9	B	22	29	anti-parallel
Strand 10	B	35	36	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	44	45	first strand
Strand 2	B	168	169	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	216	217	first strand
Strand 2	B	230	237	anti-parallel
Strand 3	B	266	272	parallel
Strand 4	B	278	285	anti-parallel

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There are 11 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	18	20	first strand
Strand 2	C	286	290	anti-parallel
Strand 3	C	248	253	anti-parallel
Strand 4	C	227	230	parallel
Strand 5	C	47	53	parallel
Strand 6	C	93	100	parallel
Strand 7	C	192	196	parallel
Strand 8	C	710	714	anti-parallel
Strand 9	C	781	787	anti-parallel
Strand 10	C	747	750	anti-parallel
Strand 11	C	734	736	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	364	365	first strand
Strand 2	C	368	369	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	662	663	first strand
Strand 2	C	674	675	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	759	760	first strand
Strand 2	C	776	777	anti-parallel

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There are 10 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	5	8	first strand
Strand 2	D	343	348	anti-parallel
Strand 3	D	331	336	anti-parallel
Strand 4	D	119	126	anti-parallel
Strand 5	D	129	134	anti-parallel
Strand 6	D	98	101	parallel
Strand 7	D	206	214	parallel
Strand 8	D	194	203	anti-parallel
Strand 9	D	22	29	anti-parallel
Strand 10	D	35	36	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	D	44	45	first strand
Strand 2	D	168	169	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	D	216	217	first strand
Strand 2	D	230	237	anti-parallel
Strand 3	D	266	272	parallel
Strand 4	D	278	285	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: 8YF5

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YF5