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

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 8YAJ entry

There are 6 chains in PDB entry 8YAJ (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 97 helices in PDB entry 8YAJ. 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	43	51	Right-handed 310
Helix 3	AA3	B	72	80	Right-handed alpha
Helix 4	AA4	B	81	85	Right-handed 310
Helix 5	AA5	B	102	108	Right-handed alpha
Helix 6	AA6	B	110	129	Right-handed alpha
Helix 7	AA7	B	144	161	Right-handed alpha
Helix 8	AA8	B	182	198	Right-handed alpha
Helix 9	AA9	B	206	217	Right-handed alpha
Helix 10	AB1	B	223	240	Right-handed alpha
Helix 11	AB2	B	241	243	Right-handed 310
Helix 12	AB3	B	251	260	Right-handed alpha
Helix 13	AB4	B	279	284	Right-handed alpha
Helix 14	AB5	B	287	297	Right-handed alpha
Helix 15	AB6	B	298	301	Right-handed 310
Helix 16	AB7	B	306	310	Right-handed 310
Helix 17	AB8	B	324	337	Right-handed alpha
Helix 18	AB9	B	384	400	Right-handed alpha
Helix 19	AC1	B	404	410	Right-handed alpha
Helix 20	AC2	B	415	437	Right-handed alpha
Helix 21	AC3	C	6	10	Right-handed 310
Helix 22	AC4	C	19	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	99	103	Right-handed 310
Helix 26	AC8	C	118	123	Right-handed alpha
Helix 27	AC9	C	126	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	45	Right-handed alpha
Helix 32	AD5	D	46	49	Right-handed 310
Helix 33	AD6	D	69	79	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	106	Right-handed alpha
Helix 37	AE1	D	107	127	Right-handed alpha
Helix 38	AE2	D	142	159	Right-handed alpha
Helix 39	AE3	D	172	176	Right-handed 310
Helix 40	AE4	D	180	195	Right-handed alpha
Helix 41	AE5	D	204	214	Right-handed alpha
Helix 42	AE6	D	221	237	Right-handed alpha
Helix 43	AE7	D	237	242	Right-handed alpha
Helix 44	AE8	D	249	258	Right-handed alpha
Helix 45	AE9	D	285	294	Right-handed alpha
Helix 46	AF1	D	304	308	Right-handed 310
Helix 47	AF2	D	322	336	Right-handed alpha
Helix 48	AF3	D	337	341	Right-handed 310
Helix 49	AF4	D	373	391	Right-handed alpha
Helix 50	AF5	D	394	400	Right-handed alpha
Helix 51	AF6	D	404	425	Right-handed alpha
Helix 52	AF7	E	10	29	Right-handed alpha
Helix 53	AF8	E	47	51	Right-handed 310
Helix 54	AF9	E	72	80	Right-handed alpha
Helix 55	AG1	E	81	86	Right-handed 310
Helix 56	AG2	E	88	90	Right-handed 310
Helix 57	AG3	E	102	108	Right-handed alpha
Helix 58	AG4	E	110	128	Right-handed alpha
Helix 59	AG5	E	144	161	Right-handed alpha
Helix 60	AG6	E	182	198	Right-handed alpha
Helix 61	AG7	E	206	216	Right-handed alpha
Helix 62	AG8	E	226	240	Right-handed alpha
Helix 63	AG9	E	241	243	Right-handed 310
Helix 64	AH1	E	251	260	Right-handed alpha
Helix 65	AH2	E	277	282	Right-handed alpha
Helix 66	AH3	E	287	296	Right-handed alpha
Helix 67	AH4	E	297	301	Right-handed 310
Helix 68	AH5	E	306	310	Right-handed 310
Helix 69	AH6	E	324	338	Right-handed alpha
Helix 70	AH7	E	384	401	Right-handed alpha
Helix 71	AH8	E	404	410	Right-handed alpha
Helix 72	AH9	E	415	437	Right-handed alpha
Helix 73	AI1	F	10	29	Right-handed alpha
Helix 74	AI2	F	40	44	Right-handed 310
Helix 75	AI3	F	46	49	Right-handed 310
Helix 76	AI4	F	69	78	Right-handed alpha
Helix 77	AI5	F	86	88	Right-handed 310
Helix 78	AI6	F	100	106	Right-handed alpha
Helix 79	AI7	F	107	126	Right-handed alpha
Helix 80	AI8	F	142	159	Right-handed alpha
Helix 81	AI9	F	172	176	Right-handed 310
Helix 82	AJ1	F	180	196	Right-handed alpha
Helix 83	AJ2	F	204	214	Right-handed alpha
Helix 84	AJ3	F	221	237	Right-handed alpha
Helix 85	AJ4	F	238	241	Right-handed 310
Helix 86	AJ5	F	249	258	Right-handed alpha
Helix 87	AJ6	F	285	295	Right-handed alpha
Helix 88	AJ7	F	296	299	Right-handed 310
Helix 89	AJ8	F	304	308	Right-handed 310
Helix 90	AJ9	F	322	337	Right-handed alpha
Helix 91	AK1	F	338	341	Right-handed 310
Helix 92	AK2	F	374	390	Right-handed alpha
Helix 93	AK3	F	394	400	Right-handed alpha
Helix 94	AK4	F	404	425	Right-handed alpha
Helix 95	AK5	I	220	224	Right-handed 310
Helix 96	AK6	I	226	231	Right-handed alpha
Helix 97	AK7	I	247	256	Right-handed alpha

There are 17 sheets in PDB entry 8YAJ. 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,

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	93	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	201	parallel

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There are 6 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	93	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	204	205	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	B	53	55	first strand
Strand 2	B	61	63	anti-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	351	354	first strand
Strand 2	B	315	321	parallel
Strand 3	B	373	379	anti-parallel

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There are 4 strands in AA5 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	82	95	anti-parallel
Strand 3	C	68	76	anti-parallel
Strand 4	C	15	18	anti-parallel

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There are 4 strands in AA6 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	82	95	anti-parallel
Strand 3	C	107	116	anti-parallel
Strand 4	C	145	147	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	C	168	169	first strand
Strand 2	C	175	176	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	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 AA9 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 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	D	51	53	first strand
Strand 2	D	59	61	anti-parallel

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There are 3 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	349	354	first strand
Strand 2	D	310	318	parallel
Strand 3	D	364	371	anti-parallel

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There are 6 strands in AB3 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	5	9	parallel
Strand 4	E	134	140	parallel
Strand 5	E	165	172	parallel
Strand 6	E	200	201	parallel

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There are 6 strands in AB4 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	5	9	parallel
Strand 4	E	134	140	parallel
Strand 5	E	165	172	parallel
Strand 6	E	204	205	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	E	53	55	first strand
Strand 2	E	61	63	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	246	247	first strand
Strand 2	E	351	356	anti-parallel
Strand 3	E	312	321	parallel
Strand 4	E	373	381	anti-parallel

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There are 10 strands in AB7 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

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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	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: 8YAJ

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