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

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 8YMA entry

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

Chain ID	Initial residue	Terminal residue
A	GLU 22	ALA 515
B	GLU 22	GLY 519
C	LEU 23	ALA 515
D	GLU 22	GLY 517

There are108 helices in PDB entry 8YMA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	56	60	Right-handed 310
Helix 2	AA2	A	89	95	Right-handed alpha
Helix 3	AA3	A	138	142	Right-handed 310
Helix 4	AA4	A	143	151	Right-handed alpha
Helix 5	AA5	A	161	167	Right-handed alpha
Helix 6	AA6	A	169	174	Right-handed alpha
Helix 7	AA7	A	175	178	Right-handed 310
Helix 8	AA8	A	179	181	Right-handed 310
Helix 9	AA9	A	182	199	Right-handed alpha
Helix 10	AB1	A	200	202	Right-handed 310
Helix 11	AB2	A	215	227	Right-handed alpha
Helix 12	AB3	A	228	231	Right-handed 310
Helix 13	AB4	A	251	266	Right-handed alpha
Helix 14	AB5	A	271	278	Right-handed alpha
Helix 15	AB6	A	279	291	Right-handed alpha
Helix 16	AB7	A	308	316	Right-handed alpha
Helix 17	AB8	A	330	338	Right-handed 310
Helix 18	AB9	A	339	344	Right-handed 310
Helix 19	AC1	A	346	359	Right-handed alpha
Helix 20	AC2	A	361	372	Right-handed alpha
Helix 21	AC3	A	376	390	Right-handed alpha
Helix 22	AC4	A	390	405	Right-handed alpha
Helix 23	AC5	A	418	423	Right-handed 310
Helix 24	AC6	A	431	437	Right-handed alpha
Helix 25	AC7	A	443	449	Right-handed alpha
Helix 26	AC8	A	452	472	Right-handed alpha
Helix 27	AC9	A	506	515	Right-handed alpha
Helix 28	AD1	B	56	60	Right-handed 310
Helix 29	AD2	B	88	95	Right-handed alpha
Helix 30	AD3	B	138	142	Right-handed 310
Helix 31	AD4	B	143	151	Right-handed alpha
Helix 32	AD5	B	162	167	Right-handed alpha
Helix 33	AD6	B	169	174	Right-handed alpha
Helix 34	AD7	B	175	178	Right-handed 310
Helix 35	AD8	B	179	181	Right-handed 310
Helix 36	AD9	B	182	199	Right-handed alpha
Helix 37	AE1	B	200	202	Right-handed 310
Helix 38	AE2	B	215	227	Right-handed alpha
Helix 39	AE3	B	228	231	Right-handed 310
Helix 40	AE4	B	251	266	Right-handed alpha
Helix 41	AE5	B	271	278	Right-handed alpha
Helix 42	AE6	B	279	289	Right-handed alpha
Helix 43	AE7	B	308	315	Right-handed alpha
Helix 44	AE8	B	330	338	Right-handed 310
Helix 45	AE9	B	339	344	Right-handed 310
Helix 46	AF1	B	346	359	Right-handed alpha
Helix 47	AF2	B	361	372	Right-handed alpha
Helix 48	AF3	B	376	390	Right-handed alpha
Helix 49	AF4	B	390	405	Right-handed alpha
Helix 50	AF5	B	418	423	Right-handed 310
Helix 51	AF6	B	431	437	Right-handed alpha
Helix 52	AF7	B	443	449	Right-handed alpha
Helix 53	AF8	B	453	472	Right-handed alpha
Helix 54	AF9	B	506	516	Right-handed alpha
Helix 55	AG1	C	56	60	Right-handed 310
Helix 56	AG2	C	88	96	Right-handed alpha
Helix 57	AG3	C	138	142	Right-handed 310
Helix 58	AG4	C	143	151	Right-handed alpha
Helix 59	AG5	C	161	167	Right-handed alpha
Helix 60	AG6	C	169	174	Right-handed alpha
Helix 61	AG7	C	175	178	Right-handed 310
Helix 62	AG8	C	179	181	Right-handed 310
Helix 63	AG9	C	182	199	Right-handed alpha
Helix 64	AH1	C	200	202	Right-handed 310
Helix 65	AH2	C	215	227	Right-handed alpha
Helix 66	AH3	C	228	231	Right-handed 310
Helix 67	AH4	C	251	266	Right-handed alpha
Helix 68	AH5	C	271	278	Right-handed alpha
Helix 69	AH6	C	279	291	Right-handed alpha
Helix 70	AH7	C	308	316	Right-handed alpha
Helix 71	AH8	C	330	338	Right-handed 310
Helix 72	AH9	C	339	343	Right-handed 310
Helix 73	AI1	C	346	359	Right-handed alpha
Helix 74	AI2	C	361	372	Right-handed alpha
Helix 75	AI3	C	376	390	Right-handed alpha
Helix 76	AI4	C	390	405	Right-handed alpha
Helix 77	AI5	C	418	423	Right-handed 310
Helix 78	AI6	C	431	437	Right-handed alpha
Helix 79	AI7	C	443	449	Right-handed alpha
Helix 80	AI8	C	453	472	Right-handed alpha
Helix 81	AI9	C	506	515	Right-handed alpha
Helix 82	AJ1	D	56	60	Right-handed 310
Helix 83	AJ2	D	88	95	Right-handed alpha
Helix 84	AJ3	D	138	142	Right-handed 310
Helix 85	AJ4	D	143	151	Right-handed alpha
Helix 86	AJ5	D	162	167	Right-handed alpha
Helix 87	AJ6	D	169	174	Right-handed alpha
Helix 88	AJ7	D	175	178	Right-handed 310
Helix 89	AJ8	D	179	181	Right-handed 310
Helix 90	AJ9	D	182	199	Right-handed alpha
Helix 91	AK1	D	200	202	Right-handed 310
Helix 92	AK2	D	215	227	Right-handed alpha
Helix 93	AK3	D	228	231	Right-handed 310
Helix 94	AK4	D	251	266	Right-handed alpha
Helix 95	AK5	D	271	278	Right-handed alpha
Helix 96	AK6	D	279	289	Right-handed alpha
Helix 97	AK7	D	308	316	Right-handed alpha
Helix 98	AK8	D	332	339	Right-handed alpha
Helix 99	AK9	D	340	343	Right-handed 310
Helix 100	AL1	D	347	359	Right-handed alpha
Helix 101	AL2	D	361	372	Right-handed alpha
Helix 102	AL3	D	376	390	Right-handed alpha
Helix 103	AL4	D	390	405	Right-handed alpha
Helix 104	AL5	D	418	423	Right-handed 310
Helix 105	AL6	D	431	437	Right-handed alpha
Helix 106	AL7	D	441	449	Right-handed alpha
Helix 107	AL8	D	452	472	Right-handed alpha
Helix 108	AL9	D	506	516	Right-handed alpha

There are 12 sheets in PDB entry 8YMA. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 3 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	24	29	first strand
Strand 2	A	34	39	anti-parallel
Strand 3	A	73	75	parallel

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There are 12 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	24	29	first strand
Strand 2	A	34	39	anti-parallel
Strand 3	A	44	50	anti-parallel
Strand 4	A	108	113	anti-parallel
Strand 5	A	153	157	anti-parallel
Strand 6	A	120	126	parallel
Strand 7	A	204	214	parallel
Strand 8	A	236	240	parallel
Strand 9	A	322	328	parallel
Strand 10	A	408	413	parallel
Strand 11	A	491	495	parallel
Strand 12	A	500	503	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	249	250	first strand
Strand 2	A	299	300	parallel

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There are 3 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	24	29	first strand
Strand 2	B	34	39	anti-parallel
Strand 3	B	73	75	parallel

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There are 12 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	24	29	first strand
Strand 2	B	34	39	anti-parallel
Strand 3	B	44	50	anti-parallel
Strand 4	B	108	113	anti-parallel
Strand 5	B	153	157	anti-parallel
Strand 6	B	120	126	parallel
Strand 7	B	204	214	parallel
Strand 8	B	236	240	parallel
Strand 9	B	322	328	parallel
Strand 10	B	408	413	parallel
Strand 11	B	491	495	parallel
Strand 12	B	500	503	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	249	250	first strand
Strand 2	B	299	300	parallel

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There are 3 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	24	29	first strand
Strand 2	C	34	39	anti-parallel
Strand 3	C	73	75	parallel

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There are 12 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	24	29	first strand
Strand 2	C	34	39	anti-parallel
Strand 3	C	44	50	anti-parallel
Strand 4	C	108	113	anti-parallel
Strand 5	C	153	157	anti-parallel
Strand 6	C	120	126	parallel
Strand 7	C	204	214	parallel
Strand 8	C	236	240	parallel
Strand 9	C	322	328	parallel
Strand 10	C	408	413	parallel
Strand 11	C	491	495	parallel
Strand 12	C	500	503	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	249	250	first strand
Strand 2	C	299	300	parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	24	29	first strand
Strand 2	D	34	39	anti-parallel
Strand 3	D	73	75	parallel

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There are 12 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	24	29	first strand
Strand 2	D	34	39	anti-parallel
Strand 3	D	44	50	anti-parallel
Strand 4	D	108	113	anti-parallel
Strand 5	D	153	157	anti-parallel
Strand 6	D	120	126	parallel
Strand 7	D	204	214	parallel
Strand 8	D	236	240	parallel
Strand 9	D	322	328	parallel
Strand 10	D	408	413	parallel
Strand 11	D	491	495	parallel
Strand 12	D	500	503	anti-parallel

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There are 2 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	249	250	first strand
Strand 2	D	299	300	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: 8YMA

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