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

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 8YJV entry

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

Chain ID	Initial residue	Terminal residue
C	PHE 2	LYS 254
D	GLY 2	LYS 354
A	MET 1	PRO 253
B	PHE 2	PRO 253
J	T 1	T 20
E	A 1	A 31
F	A 7	T 17
H	T 1	T 3

There are 34 helices in PDB entry 8YJV. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	8	19	Right-handed alpha
Helix 2	AA2	C	72	80	Right-handed alpha
Helix 3	AA3	C	141	155	Right-handed alpha
Helix 4	AA4	C	209	216	Right-handed alpha
Helix 5	AA5	C	217	222	Right-handed 310
Helix 6	AA6	D	6	13	Right-handed alpha
Helix 7	AA7	D	23	27	Right-handed 310
Helix 8	AA8	D	35	46	Right-handed alpha
Helix 9	AA9	D	61	77	Right-handed alpha
Helix 10	AB1	D	90	92	Right-handed 310
Helix 11	AB2	D	93	118	Right-handed alpha
Helix 12	AB3	D	120	129	Right-handed alpha
Helix 13	AB4	D	134	149	Right-handed alpha
Helix 14	AB5	D	158	169	Right-handed alpha
Helix 15	AB6	D	180	186	Right-handed alpha
Helix 16	AB7	D	209	216	Right-handed alpha
Helix 17	AB8	D	219	231	Right-handed alpha
Helix 18	AB9	D	242	254	Right-handed alpha
Helix 19	AC1	D	256	262	Right-handed alpha
Helix 20	AC2	D	275	285	Right-handed alpha
Helix 21	AC3	D	302	313	Right-handed alpha
Helix 22	AC4	D	317	334	Right-handed alpha
Helix 23	AC5	D	335	337	Right-handed 310
Helix 24	AC6	D	339	343	Right-handed 310
Helix 25	AC7	A	8	19	Right-handed alpha
Helix 26	AC8	A	72	81	Right-handed alpha
Helix 27	AC9	A	141	152	Right-handed alpha
Helix 28	AD1	A	209	216	Right-handed alpha
Helix 29	AD2	A	217	222	Right-handed 310
Helix 30	AD3	B	8	20	Right-handed alpha
Helix 31	AD4	B	72	82	Right-handed alpha
Helix 32	AD5	B	140	152	Right-handed alpha
Helix 33	AD6	B	210	216	Right-handed alpha
Helix 34	AD7	B	217	222	Right-handed 310

There are 14 sheets in PDB entry 8YJV. 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,

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	C	58	61	first strand
Strand 2	C	3	6	anti-parallel
Strand 3	C	87	92	anti-parallel
Strand 4	C	98	104	anti-parallel
Strand 5	C	110	117	anti-parallel
Strand 6	B	176	183	anti-parallel
Strand 7	B	166	173	anti-parallel
Strand 8	B	157	161	anti-parallel
Strand 9	B	204	208	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	25	30	first strand
Strand 2	C	66	71	anti-parallel

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There are 7 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	34	40	first strand
Strand 2	C	46	53	anti-parallel
Strand 3	C	245	251	anti-parallel
Strand 4	C	233	240	anti-parallel
Strand 5	C	224	230	anti-parallel
Strand 6	C	135	140	anti-parallel
Strand 7	C	196	199	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	C	126	127	first strand
Strand 2	D	345	346	anti-parallel

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There are 5 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	204	208	first strand
Strand 2	C	157	161	anti-parallel
Strand 3	C	168	171	anti-parallel
Strand 4	C	180	182	anti-parallel
Strand 5	A	110	111	anti-parallel

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There are 3 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	18	21	first strand
Strand 2	D	204	208	anti-parallel
Strand 3	D	189	192	anti-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	152	154	first strand
Strand 2	D	80	85	parallel
Strand 3	D	30	34	parallel
Strand 4	D	174	175	parallel

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There are 2 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	47	48	first strand
Strand 2	D	51	52	anti-parallel

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There are 4 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	59	61	first strand
Strand 2	A	2	6	anti-parallel
Strand 3	A	87	92	anti-parallel
Strand 4	A	99	104	anti-parallel

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There are 9 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	66	71	first strand
Strand 2	A	25	30	anti-parallel
Strand 3	A	34	40	anti-parallel
Strand 4	A	47	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	197	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	204	208	first strand
Strand 2	A	157	161	anti-parallel
Strand 3	A	168	170	anti-parallel
Strand 4	A	180	182	anti-parallel
Strand 5	B	110	112	anti-parallel
Strand 6	B	103	104	anti-parallel

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There are 5 strands in AB3 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	88	92	anti-parallel
Strand 4	B	98	100	anti-parallel
Strand 5	B	115	117	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	25	30	first strand
Strand 2	B	66	71	anti-parallel

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There are 7 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	34	40	first strand
Strand 2	B	46	53	anti-parallel
Strand 3	B	245	251	anti-parallel
Strand 4	B	235	241	anti-parallel
Strand 5	B	225	229	anti-parallel
Strand 6	B	135	139	anti-parallel
Strand 7	B	196	197	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: 8YJV

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