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

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 8YJU entry

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

Chain ID	Initial residue	Terminal residue
B	MET 1	LYS 254
A	PHE 2	LYS 254
C	PHE 2	LYS 254
D	GLY 2	SER 352
J	T 1	T 20
E	A 1	A 31
F	T 7	T 17
H	T -5	T -3

There are 31 helices in PDB entry 8YJU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	8	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	B	217	219	Right-handed 310
Helix 6	AA6	A	8	20	Right-handed alpha
Helix 7	AA7	A	72	82	Right-handed alpha
Helix 8	AA8	A	141	155	Right-handed alpha
Helix 9	AA9	A	208	216	Right-handed alpha
Helix 10	AB1	A	217	219	Right-handed 310
Helix 11	AB2	C	9	20	Right-handed alpha
Helix 12	AB3	C	72	80	Right-handed alpha
Helix 13	AB4	C	140	155	Right-handed alpha
Helix 14	AB5	C	209	216	Right-handed alpha
Helix 15	AB6	D	5	14	Right-handed alpha
Helix 16	AB7	D	22	26	Right-handed 310
Helix 17	AB8	D	35	46	Right-handed alpha
Helix 18	AB9	D	61	77	Right-handed alpha
Helix 19	AC1	D	90	118	Right-handed alpha
Helix 20	AC2	D	119	130	Right-handed alpha
Helix 21	AC3	D	134	149	Right-handed alpha
Helix 22	AC4	D	158	169	Right-handed alpha
Helix 23	AC5	D	180	186	Right-handed alpha
Helix 24	AC6	D	209	217	Right-handed alpha
Helix 25	AC7	D	219	230	Right-handed alpha
Helix 26	AC8	D	242	254	Right-handed alpha
Helix 27	AC9	D	255	262	Right-handed alpha
Helix 28	AD1	D	275	285	Right-handed alpha
Helix 29	AD2	D	302	311	Right-handed alpha
Helix 30	AD3	D	318	334	Right-handed alpha
Helix 31	AD4	D	339	344	Right-handed alpha

There are 11 sheets in PDB entry 8YJU. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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	2	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	177	181	anti-parallel
Strand 7	A	167	172	anti-parallel
Strand 8	A	158	162	anti-parallel
Strand 9	A	204	206	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	47	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	206	208	first strand
Strand 2	B	157	160	anti-parallel
Strand 3	B	166	172	anti-parallel
Strand 4	B	177	183	anti-parallel
Strand 5	C	110	117	anti-parallel
Strand 6	C	98	104	anti-parallel
Strand 7	C	87	91	anti-parallel
Strand 8	C	3	5	anti-parallel
Strand 9	C	59	61	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	4	5	first strand
Strand 2	A	59	60	anti-parallel

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There are 9 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	66	71	first strand
Strand 2	A	25	30	anti-parallel
Strand 3	A	34	40	anti-parallel
Strand 4	A	46	53	anti-parallel
Strand 5	A	245	251	anti-parallel
Strand 6	A	233	241	anti-parallel
Strand 7	A	224	230	anti-parallel
Strand 8	A	135	140	anti-parallel
Strand 9	A	196	198	anti-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	A	87	92	first strand
Strand 2	A	99	104	anti-parallel
Strand 3	A	110	116	anti-parallel
Strand 4	C	176	182	anti-parallel
Strand 5	C	167	172	anti-parallel
Strand 6	C	157	162	anti-parallel
Strand 7	C	204	208	anti-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	25	27	first strand
Strand 2	C	69	71	anti-parallel

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There are 8 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	29	30	first strand
Strand 2	C	34	39	anti-parallel
Strand 3	C	46	53	anti-parallel
Strand 4	C	246	251	anti-parallel
Strand 5	C	233	239	anti-parallel
Strand 6	C	225	230	anti-parallel
Strand 7	C	135	139	anti-parallel
Strand 8	C	196	198	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	124	127	first strand
Strand 2	D	345	349	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	D	18	19	first strand
Strand 2	D	205	208	anti-parallel
Strand 3	D	189	192	anti-parallel

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There are 4 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	152	154	first strand
Strand 2	D	80	85	parallel
Strand 3	D	30	34	parallel
Strand 4	D	174	176	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: 8YJU

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