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

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 8YAL entry

There are 6 chains in PDB entry 8YAL (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	MET 1	SER 439
C	MET 1	PRO 189
D	MET 1	GLU 427
E	MET 1	SER 439
F	MET 1	GLU 427
I	THR 214	TRP 263

There are 92 helices in PDB entry 8YAL. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	10	28	Right-handed alpha
Helix 2	AA2	B	38	43	Right-handed alpha
Helix 3	AA3	B	45	50	Right-handed alpha
Helix 4	AA4	B	72	80	Right-handed alpha
Helix 5	AA5	B	88	90	Right-handed 310
Helix 6	AA6	B	102	108	Right-handed alpha
Helix 7	AA7	B	110	129	Right-handed alpha
Helix 8	AA8	B	144	161	Right-handed alpha
Helix 9	AA9	B	182	197	Right-handed alpha
Helix 10	AB1	B	206	216	Right-handed alpha
Helix 11	AB2	B	223	244	Right-handed alpha
Helix 12	AB3	B	251	260	Right-handed alpha
Helix 13	AB4	B	277	282	Right-handed alpha
Helix 14	AB5	B	287	294	Right-handed alpha
Helix 15	AB6	B	295	301	Right-handed 310
Helix 16	AB7	B	306	310	Right-handed 310
Helix 17	AB8	B	324	338	Right-handed alpha
Helix 18	AB9	B	383	401	Right-handed alpha
Helix 19	AC1	B	404	410	Right-handed alpha
Helix 20	AC2	B	415	436	Right-handed alpha
Helix 21	AC3	C	6	10	Right-handed 310
Helix 22	AC4	C	20	26	Right-handed alpha
Helix 23	AC5	C	31	50	Right-handed alpha
Helix 24	AC6	C	57	63	Right-handed alpha
Helix 25	AC7	C	100	102	Right-handed 310
Helix 26	AC8	C	119	122	Right-handed 310
Helix 27	AC9	C	127	139	Right-handed alpha
Helix 28	AD1	C	141	143	Right-handed 310
Helix 29	AD2	C	151	162	Right-handed alpha
Helix 30	AD3	D	10	29	Right-handed alpha
Helix 31	AD4	D	40	46	Right-handed alpha
Helix 32	AD5	D	47	50	Right-handed 310
Helix 33	AD6	D	69	78	Right-handed alpha
Helix 34	AD7	D	81	85	Right-handed 310
Helix 35	AD8	D	86	88	Right-handed 310
Helix 36	AD9	D	100	107	Right-handed alpha
Helix 37	AE1	D	107	125	Right-handed alpha
Helix 38	AE2	D	142	159	Right-handed alpha
Helix 39	AE3	D	180	195	Right-handed alpha
Helix 40	AE4	D	204	214	Right-handed alpha
Helix 41	AE5	D	221	237	Right-handed alpha
Helix 42	AE6	D	238	241	Right-handed 310
Helix 43	AE7	D	249	258	Right-handed alpha
Helix 44	AE8	D	285	294	Right-handed alpha
Helix 45	AE9	D	304	308	Right-handed 310
Helix 46	AF1	D	322	337	Right-handed alpha
Helix 47	AF2	D	338	341	Right-handed 310
Helix 48	AF3	D	374	390	Right-handed alpha
Helix 49	AF4	D	394	400	Right-handed alpha
Helix 50	AF5	D	404	425	Right-handed alpha
Helix 51	AF6	E	10	29	Right-handed alpha
Helix 52	AF7	E	72	81	Right-handed alpha
Helix 53	AF8	E	82	85	Right-handed 310
Helix 54	AF9	E	88	90	Right-handed 310
Helix 55	AG1	E	102	108	Right-handed alpha
Helix 56	AG2	E	110	128	Right-handed alpha
Helix 57	AG3	E	144	161	Right-handed alpha
Helix 58	AG4	E	182	197	Right-handed alpha
Helix 59	AG5	E	206	216	Right-handed alpha
Helix 60	AG6	E	223	240	Right-handed alpha
Helix 61	AG7	E	241	243	Right-handed 310
Helix 62	AG8	E	251	260	Right-handed alpha
Helix 63	AG9	E	277	282	Right-handed alpha
Helix 64	AH1	E	287	296	Right-handed alpha
Helix 65	AH2	E	324	338	Right-handed alpha
Helix 66	AH3	E	384	400	Right-handed alpha
Helix 67	AH4	E	404	410	Right-handed alpha
Helix 68	AH5	E	414	436	Right-handed alpha
Helix 69	AH6	F	10	29	Right-handed alpha
Helix 70	AH7	F	46	49	Right-handed 310
Helix 71	AH8	F	69	78	Right-handed alpha
Helix 72	AH9	F	86	88	Right-handed 310
Helix 73	AI1	F	100	106	Right-handed alpha
Helix 74	AI2	F	109	125	Right-handed alpha
Helix 75	AI3	F	142	159	Right-handed alpha
Helix 76	AI4	F	172	176	Right-handed 310
Helix 77	AI5	F	180	195	Right-handed alpha
Helix 78	AI6	F	204	214	Right-handed alpha
Helix 79	AI7	F	221	237	Right-handed alpha
Helix 80	AI8	F	249	258	Right-handed alpha
Helix 81	AI9	F	285	294	Right-handed alpha
Helix 82	AJ1	F	295	299	Right-handed 310
Helix 83	AJ2	F	304	308	Right-handed 310
Helix 84	AJ3	F	322	337	Right-handed alpha
Helix 85	AJ4	F	338	341	Right-handed 310
Helix 86	AJ5	F	374	390	Right-handed alpha
Helix 87	AJ6	F	394	400	Right-handed alpha
Helix 88	AJ7	F	404	425	Right-handed alpha
Helix 89	AJ8	I	220	224	Right-handed 310
Helix 90	AJ9	I	225	232	Right-handed alpha
Helix 91	AK1	I	233	236	Right-handed 310
Helix 92	AK2	I	247	256	Right-handed alpha

There are 12 sheets in PDB entry 8YAL. 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 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	B	92	94	first strand
Strand 2	B	65	69	parallel
Strand 3	B	3	9	parallel
Strand 4	B	132	140	parallel
Strand 5	B	165	172	parallel
Strand 6	B	200	205	parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	271	272	first strand
Strand 2	B	373	381	anti-parallel
Strand 3	B	312	321	anti-parallel
Strand 4	B	351	356	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	C	2	3	first strand
Strand 2	C	81	98	anti-parallel
Strand 3	C	69	78	anti-parallel
Strand 4	C	15	19	anti-parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2	3	first strand
Strand 2	C	81	98	anti-parallel
Strand 3	C	104	117	anti-parallel
Strand 4	C	145	148	parallel
Strand 5	C	174	176	anti-parallel
Strand 6	C	168	169	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	90	92	first strand
Strand 2	D	63	67	parallel
Strand 3	D	3	9	parallel
Strand 4	D	130	138	parallel
Strand 5	D	163	170	parallel
Strand 6	D	202	203	parallel

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There are 7 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	90	92	first strand
Strand 2	D	63	67	parallel
Strand 3	D	3	9	parallel
Strand 4	D	130	138	parallel
Strand 5	D	163	170	parallel
Strand 6	D	198	200	parallel
Strand 7	D	265	266	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	D	244	246	first strand
Strand 2	D	349	354	anti-parallel
Strand 3	D	310	318	parallel
Strand 4	D	364	371	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	92	94	first strand
Strand 2	E	65	69	parallel
Strand 3	E	3	9	parallel
Strand 4	E	132	140	parallel
Strand 5	E	165	172	parallel
Strand 6	E	200	205	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	E	53	55	first strand
Strand 2	E	61	63	anti-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	E	351	354	first strand
Strand 2	E	312	321	parallel
Strand 3	E	373	381	anti-parallel

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There are 11 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	90	92	first strand
Strand 2	F	63	67	parallel
Strand 3	F	3	9	parallel
Strand 4	F	130	138	parallel
Strand 5	F	163	170	parallel
Strand 6	F	198	203	parallel
Strand 7	F	265	268	parallel
Strand 8	F	364	371	anti-parallel
Strand 9	F	310	318	anti-parallel
Strand 10	F	349	354	parallel
Strand 11	F	244	246	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	F	51	53	first strand
Strand 2	F	59	61	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: 8YAL

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