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

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 8JEF entry

There are 5 chains in PDB entry 8JEF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 17	SER 300
C	THR 4	LEU 353
B	LEU 4	ASN 340
G	SER 8	GLU 63
S	ASP 1	LEU 235

There are 28 helices in PDB entry 8JEF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	30	54	Right-handed alpha
Helix 2	AA2	A	60	80	Right-handed alpha
Helix 3	AA3	A	83	90	Right-handed alpha
Helix 4	AA4	A	96	131	Right-handed alpha
Helix 5	AA5	A	134	138	Right-handed 310
Helix 6	AA6	A	140	159	Right-handed alpha
Helix 7	AA7	A	160	163	Right-handed 310
Helix 8	AA8	A	187	215	Right-handed alpha
Helix 9	AA9	A	229	262	Right-handed alpha
Helix 10	AB1	A	268	272	Right-handed 310
Helix 11	AB2	A	273	284	Right-handed alpha
Helix 12	AB3	A	288	296	Right-handed alpha
Helix 13	AB4	C	6	31	Right-handed alpha
Helix 14	AB5	C	45	53	Right-handed alpha
Helix 15	AB6	C	207	216	Right-handed 310
Helix 16	AB7	C	226	231	Right-handed 310
Helix 17	AB8	C	242	255	Right-handed alpha
Helix 18	AB9	C	270	281	Right-handed alpha
Helix 19	AC1	C	282	286	Right-handed 310
Helix 20	AC2	C	302	309	Right-handed alpha
Helix 21	AC3	C	329	352	Right-handed alpha
Helix 22	AC4	B	9	26	Right-handed alpha
Helix 23	AC5	B	29	35	Right-handed alpha
Helix 24	AC6	G	9	23	Right-handed alpha
Helix 25	AC7	G	29	44	Right-handed alpha
Helix 26	AC8	G	55	59	Right-handed 310
Helix 27	AC9	S	28	32	Right-handed 310
Helix 28	AD1	S	87	91	Right-handed 310

There are 12 sheets in PDB entry 8JEF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 6 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	184	191	first strand
Strand 2	C	194	201	anti-parallel
Strand 3	C	34	40	parallel
Strand 4	C	220	224	parallel
Strand 5	C	263	266	parallel
Strand 6	C	319	321	parallel

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There are 4 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	46	51	first strand
Strand 2	B	336	340	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	320	anti-parallel

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There are 4 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	58	63	first strand
Strand 2	B	69	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	88	94	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	134	140	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	146	151	first strand
Strand 2	B	157	161	anti-parallel
Strand 3	B	165	168	anti-parallel
Strand 4	B	178	181	anti-parallel

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There are 4 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	187	192	first strand
Strand 2	B	198	203	anti-parallel
Strand 3	B	208	212	anti-parallel
Strand 4	B	218	222	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	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	259	264	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	273	278	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	304	307	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	S	3	7	first strand
Strand 2	S	17	25	anti-parallel
Strand 3	S	78	84	anti-parallel
Strand 4	S	68	73	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	58	60	first strand
Strand 2	S	45	51	anti-parallel
Strand 3	S	33	39	anti-parallel
Strand 4	S	93	99	anti-parallel
Strand 5	S	115	116	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	S	134	136	first strand
Strand 2	S	231	234	parallel
Strand 3	S	214	219	anti-parallel
Strand 4	S	162	167	anti-parallel
Strand 5	S	174	178	anti-parallel
Strand 6	S	182	183	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	143	148	first strand
Strand 2	S	199	204	anti-parallel
Strand 3	S	191	196	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: 8JEF

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