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

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 8YJR entry

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

Chain ID	Initial residue	Terminal residue
B	PHE 2	LYS 254
C	MET 1	ILE 255
D	GLY 2	ALA 353
A	PHE 2	LYS 254
J	T 1	T 20
E	T 0	A 30
F	T 1	A 11
H	T 1	T 3

There are 31 helices in PDB entry 8YJR. 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	217	Right-handed alpha
Helix 5	AA5	C	8	20	Right-handed alpha
Helix 6	AA6	C	72	80	Right-handed alpha
Helix 7	AA7	C	141	153	Right-handed alpha
Helix 8	AA8	C	209	216	Right-handed alpha
Helix 9	AA9	D	5	14	Right-handed alpha
Helix 10	AB1	D	22	26	Right-handed 310
Helix 11	AB2	D	35	46	Right-handed alpha
Helix 12	AB3	D	61	76	Right-handed alpha
Helix 13	AB4	D	90	92	Right-handed 310
Helix 14	AB5	D	93	116	Right-handed alpha
Helix 15	AB6	D	119	130	Right-handed alpha
Helix 16	AB7	D	134	148	Right-handed alpha
Helix 17	AB8	D	158	169	Right-handed alpha
Helix 18	AB9	D	180	186	Right-handed alpha
Helix 19	AC1	D	209	216	Right-handed alpha
Helix 20	AC2	D	219	230	Right-handed alpha
Helix 21	AC3	D	242	253	Right-handed alpha
Helix 22	AC4	D	255	262	Right-handed alpha
Helix 23	AC5	D	275	285	Right-handed alpha
Helix 24	AC6	D	303	312	Right-handed alpha
Helix 25	AC7	D	317	333	Right-handed alpha
Helix 26	AC8	A	9	19	Right-handed alpha
Helix 27	AC9	A	55	57	Right-handed 310
Helix 28	AD1	A	72	80	Right-handed alpha
Helix 29	AD2	A	141	153	Right-handed alpha
Helix 30	AD3	A	209	216	Right-handed alpha
Helix 31	AD4	A	217	219	Right-handed 310

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

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	91	anti-parallel
Strand 4	B	100	104	anti-parallel
Strand 5	B	110	114	anti-parallel
Strand 6	A	178	182	anti-parallel
Strand 7	A	168	171	anti-parallel
Strand 8	A	158	161	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	30	anti-parallel
Strand 3	B	34	40	anti-parallel
Strand 4	B	47	53	anti-parallel
Strand 5	B	246	250	anti-parallel
Strand 6	B	236	239	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	161	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	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	66	71	first strand
Strand 2	C	25	30	anti-parallel
Strand 3	C	34	40	anti-parallel
Strand 4	C	46	53	anti-parallel
Strand 5	C	246	251	anti-parallel
Strand 6	C	233	240	anti-parallel
Strand 7	C	224	230	anti-parallel
Strand 8	C	135	140	anti-parallel
Strand 9	C	196	198	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	123	127	first strand
Strand 2	D	345	350	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	177	182	anti-parallel
Strand 5	A	110	114	anti-parallel
Strand 6	A	100	104	anti-parallel
Strand 7	A	87	91	anti-parallel
Strand 8	A	3	6	anti-parallel
Strand 9	A	60	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	191	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 9 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	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	235	241	anti-parallel
Strand 7	A	224	229	anti-parallel
Strand 8	A	135	140	anti-parallel
Strand 9	A	196	199	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: 8YJR

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