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

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 8YJW entry

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

Chain ID	Initial residue	Terminal residue
B	MET 1	LYS 254
C	MET 1	GLU 256
D	GLY 2	ALA 353
A	MET 1	LYS 254
J	T 1	T 20
E	A 2	A 31
H	T 1	T 3
F	T 1	T 10

There are 29 helices in PDB entry 8YJW. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	9	20	Right-handed alpha
Helix 2	AA2	B	72	80	Right-handed alpha
Helix 3	AA3	B	141	152	Right-handed alpha
Helix 4	AA4	B	209	216	Right-handed alpha
Helix 5	AA5	C	8	23	Right-handed alpha
Helix 6	AA6	C	72	80	Right-handed alpha
Helix 7	AA7	C	141	152	Right-handed alpha
Helix 8	AA8	C	209	216	Right-handed alpha
Helix 9	AA9	C	217	219	Right-handed 310
Helix 10	AB1	D	6	14	Right-handed alpha
Helix 11	AB2	D	35	46	Right-handed alpha
Helix 12	AB3	D	61	77	Right-handed alpha
Helix 13	AB4	D	90	92	Right-handed 310
Helix 14	AB5	D	93	118	Right-handed alpha
Helix 15	AB6	D	119	129	Right-handed alpha
Helix 16	AB7	D	134	149	Right-handed alpha
Helix 17	AB8	D	158	169	Right-handed alpha
Helix 18	AB9	D	181	186	Right-handed alpha
Helix 19	AC1	D	209	216	Right-handed alpha
Helix 20	AC2	D	219	231	Right-handed alpha
Helix 21	AC3	D	242	253	Right-handed alpha
Helix 22	AC4	D	255	263	Right-handed alpha
Helix 23	AC5	D	276	285	Right-handed alpha
Helix 24	AC6	D	303	311	Right-handed alpha
Helix 25	AC7	D	317	335	Right-handed alpha
Helix 26	AC8	A	8	23	Right-handed alpha
Helix 27	AC9	A	72	82	Right-handed alpha
Helix 28	AD1	A	140	155	Right-handed alpha
Helix 29	AD2	A	208	217	Right-handed alpha

There are 10 sheets in PDB entry 8YJW. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 9 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	59	61	first strand
Strand 2	B	3	6	anti-parallel
Strand 3	B	87	92	anti-parallel
Strand 4	B	98	104	anti-parallel
Strand 5	B	111	117	anti-parallel
Strand 6	A	176	183	anti-parallel
Strand 7	A	166	173	anti-parallel
Strand 8	A	158	161	anti-parallel
Strand 9	A	204	207	anti-parallel

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There are 9 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	66	71	first strand
Strand 2	B	25	31	anti-parallel
Strand 3	B	34	40	anti-parallel
Strand 4	B	46	53	anti-parallel
Strand 5	B	245	251	anti-parallel
Strand 6	B	235	241	anti-parallel
Strand 7	B	224	229	anti-parallel
Strand 8	B	135	140	anti-parallel
Strand 9	B	196	199	anti-parallel

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There are 9 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	204	208	first strand
Strand 2	B	157	162	anti-parallel
Strand 3	B	167	172	anti-parallel
Strand 4	B	176	182	anti-parallel
Strand 5	C	110	117	anti-parallel
Strand 6	C	98	104	anti-parallel
Strand 7	C	87	92	anti-parallel
Strand 8	C	2	6	anti-parallel
Strand 9	C	59	62	anti-parallel

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There are 9 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	67	71	first strand
Strand 2	C	25	30	anti-parallel
Strand 3	C	34	39	anti-parallel
Strand 4	C	48	53	anti-parallel
Strand 5	C	245	251	anti-parallel
Strand 6	C	233	238	anti-parallel
Strand 7	C	224	230	anti-parallel
Strand 8	C	135	140	anti-parallel
Strand 9	C	196	197	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	C	122	123	first strand
Strand 2	D	350	351	anti-parallel

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There are 9 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	204	208	first strand
Strand 2	C	157	162	anti-parallel
Strand 3	C	167	172	anti-parallel
Strand 4	C	176	181	anti-parallel
Strand 5	A	111	116	anti-parallel
Strand 6	A	99	104	anti-parallel
Strand 7	A	87	92	anti-parallel
Strand 8	A	2	6	anti-parallel
Strand 9	A	59	61	anti-parallel

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There are 7 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	18	21	first strand
Strand 2	D	204	208	anti-parallel
Strand 3	D	189	192	anti-parallel
Strand 4	D	174	176	parallel
Strand 5	D	30	34	parallel
Strand 6	D	80	85	parallel
Strand 7	D	152	154	parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	67	71	first strand
Strand 2	A	25	31	anti-parallel
Strand 3	A	34	40	anti-parallel
Strand 4	A	46	53	anti-parallel
Strand 5	A	245	251	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	A	136	138	first strand
Strand 2	A	196	198	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	A	225	226	first strand
Strand 2	A	238	239	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: 8YJW

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