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

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 8YJL entry

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

Chain ID	Initial residue	Terminal residue
J	T 1	T 17
E	A 0	A 27
F	T 1	T 11
H	T 1	T 3
C	MET 1	GLU 256
B	MET 1	LYS 254
A	MET 1	LYS 254
D	ILE 3	ALA 353

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	9	20	Right-handed alpha
Helix 2	AA2	C	71	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	B	8	19	Right-handed alpha
Helix 6	AA6	B	72	80	Right-handed alpha
Helix 7	AA7	B	141	152	Right-handed alpha
Helix 8	AA8	B	209	217	Right-handed alpha
Helix 9	AA9	A	9	20	Right-handed alpha
Helix 10	AB1	A	72	80	Right-handed alpha
Helix 11	AB2	A	141	152	Right-handed alpha
Helix 12	AB3	A	209	216	Right-handed alpha
Helix 13	AB4	A	217	219	Right-handed 310
Helix 14	AB5	D	5	14	Right-handed alpha
Helix 15	AB6	D	35	43	Right-handed alpha
Helix 16	AB7	D	61	77	Right-handed alpha
Helix 17	AB8	D	90	112	Right-handed alpha
Helix 18	AB9	D	119	128	Right-handed alpha
Helix 19	AC1	D	134	149	Right-handed alpha
Helix 20	AC2	D	158	169	Right-handed alpha
Helix 21	AC3	D	180	186	Right-handed alpha
Helix 22	AC4	D	209	217	Right-handed alpha
Helix 23	AC5	D	219	230	Right-handed alpha
Helix 24	AC6	D	242	251	Right-handed alpha
Helix 25	AC7	D	256	263	Right-handed alpha
Helix 26	AC8	D	275	285	Right-handed alpha
Helix 27	AC9	D	302	311	Right-handed alpha
Helix 28	AD1	D	318	333	Right-handed alpha
Helix 29	AD2	D	339	344	Right-handed alpha

There are 10 sheets in PDB entry 8YJL. 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	C	59	62	first strand
Strand 2	C	2	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	177	183	anti-parallel
Strand 7	B	166	172	anti-parallel
Strand 8	B	157	162	anti-parallel
Strand 9	B	203	208	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	C	66	70	first strand
Strand 2	C	26	31	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	235	238	anti-parallel
Strand 7	C	224	229	anti-parallel
Strand 8	C	135	140	anti-parallel
Strand 9	C	196	199	anti-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	C	122	125	first strand
Strand 2	D	348	351	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	203	208	first strand
Strand 2	C	157	163	anti-parallel
Strand 3	C	166	172	anti-parallel
Strand 4	C	177	182	anti-parallel
Strand 5	A	110	114	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 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	254	255	first strand
Strand 2	D	336	337	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	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	110	117	anti-parallel
Strand 6	A	176	183	anti-parallel
Strand 7	A	166	173	anti-parallel
Strand 8	A	157	162	anti-parallel
Strand 9	A	203	208	anti-parallel

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There are 9 strands in AA7 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	198	anti-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	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	235	241	anti-parallel
Strand 7	A	224	229	anti-parallel
Strand 8	A	135	140	anti-parallel
Strand 9	A	196	198	anti-parallel

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There are 3 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	18	21	first strand
Strand 2	D	204	208	anti-parallel
Strand 3	D	189	190	anti-parallel

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There are 4 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	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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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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