Analysis of interatomic Contacts of Structural Units in PDB entry:
8J5D

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 8J5D entry

There are 4 chains in PDB entry 8J5D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 106	GLY 539
B	ALA 81	LYS 396
D	MET 72	GLY 280
C	ALA 81	ASN 395

There are 48 helices in PDB entry 8J5D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	125	139	Right-handed alpha
Helix 2	AA2	A	163	176	Right-handed alpha
Helix 3	AA3	A	202	212	Right-handed alpha
Helix 4	AA4	A	243	259	Right-handed alpha
Helix 5	AA5	A	275	279	Right-handed 310
Helix 6	AA6	A	287	291	Right-handed 310
Helix 7	AA7	A	304	318	Right-handed alpha
Helix 8	AA8	A	337	341	Right-handed 310
Helix 9	AA9	A	349	352	Right-handed 310
Helix 10	AB1	A	353	382	Right-handed alpha
Helix 11	AB2	A	405	411	Right-handed alpha
Helix 12	AB3	A	421	433	Right-handed alpha
Helix 13	AB4	A	455	471	Right-handed alpha
Helix 14	AB5	A	484	497	Right-handed alpha
Helix 15	AB6	A	519	523	Right-handed 310
Helix 16	AB7	A	524	539	Right-handed alpha
Helix 17	AB8	B	94	104	Right-handed alpha
Helix 18	AB9	B	119	128	Right-handed alpha
Helix 19	AC1	B	140	148	Right-handed alpha
Helix 20	AC2	B	167	190	Right-handed alpha
Helix 21	AC3	B	201	215	Right-handed alpha
Helix 22	AC4	B	220	222	Right-handed 310
Helix 23	AC5	B	228	244	Right-handed alpha
Helix 24	AC6	B	267	270	Right-handed 310
Helix 25	AC7	B	277	282	Right-handed alpha
Helix 26	AC8	B	283	299	Right-handed alpha
Helix 27	AC9	B	306	325	Right-handed alpha
Helix 28	AD1	B	362	366	Right-handed 310
Helix 29	AD2	B	369	396	Right-handed alpha
Helix 30	AD3	D	106	111	Right-handed alpha
Helix 31	AD4	D	136	146	Right-handed alpha
Helix 32	AD5	D	163	170	Right-handed alpha
Helix 33	AD6	D	212	216	Right-handed 310
Helix 34	AD7	D	217	225	Right-handed alpha
Helix 35	AD8	D	267	280	Right-handed alpha
Helix 36	AD9	C	94	104	Right-handed alpha
Helix 37	AE1	C	118	127	Right-handed alpha
Helix 38	AE2	C	140	148	Right-handed alpha
Helix 39	AE3	C	167	190	Right-handed alpha
Helix 40	AE4	C	201	217	Right-handed alpha
Helix 41	AE5	C	220	224	Right-handed 310
Helix 42	AE6	C	228	243	Right-handed alpha
Helix 43	AE7	C	267	270	Right-handed 310
Helix 44	AE8	C	277	289	Right-handed alpha
Helix 45	AE9	C	291	299	Right-handed alpha
Helix 46	AF1	C	306	325	Right-handed alpha
Helix 47	AF2	C	362	366	Right-handed 310
Helix 48	AF3	C	369	395	Right-handed alpha

There are 9 sheets in PDB entry 8J5D. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

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	A	108	111	first strand
Strand 2	A	143	149	parallel
Strand 3	A	179	185	parallel
Strand 4	A	267	272	parallel
Strand 5	A	388	393	parallel
Strand 6	A	434	438	parallel
Strand 7	A	474	477	parallel
Strand 8	A	513	515	parallel
Strand 9	A	108	111	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	A	216	218	first strand
Strand 2	A	224	229	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	134	138	first strand
Strand 2	B	108	114	parallel
Strand 3	B	83	88	parallel
Strand 4	B	153	156	parallel
Strand 5	B	195	197	parallel
Strand 6	B	224	227	parallel
Strand 7	B	331	336	anti-parallel
Strand 8	B	346	353	anti-parallel
Strand 9	B	356	360	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	B	254	256	first strand
Strand 2	B	263	265	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	D	76	82	first strand
Strand 2	D	150	156	anti-parallel
Strand 3	D	119	123	anti-parallel
Strand 4	D	132	133	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	D	247	251	first strand
Strand 2	D	87	92	anti-parallel
Strand 3	D	97	103	anti-parallel
Strand 4	D	261	262	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	D	184	186	first strand
Strand 2	D	208	210	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	C	134	139	first strand
Strand 2	C	108	115	parallel
Strand 3	C	83	88	parallel
Strand 4	C	153	156	parallel
Strand 5	C	194	197	parallel
Strand 6	C	225	227	parallel
Strand 7	C	331	337	anti-parallel
Strand 8	C	345	353	anti-parallel
Strand 9	C	356	360	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	254	256	first strand
Strand 2	C	263	265	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: 8J5D

Analysis of interatomic Contacts of Structural Units in PDB entry:
8J5D