Analysis of interatomic Contacts of Structural Units in PDB entry:
8JD7

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 8JD7 entry

There are 2 chains in PDB entry 8JD7 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 12	TYR 521
B	ASN 12	TYR 521

There are 25 helices in PDB entry 8JD7. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	21	25	Right-handed 310
Helix 2	AA2	A	27	32	Right-handed 310
Helix 3	AA3	A	67	70	Right-handed 310
Helix 4	AA4	A	136	140	Right-handed 310
Helix 5	AA5	A	277	279	Right-handed 310
Helix 6	AA6	A	310	314	Right-handed 310
Helix 7	AA7	A	362	373	Right-handed alpha
Helix 8	AA8	A	374	376	Right-handed 310
Helix 9	AA9	A	384	388	Right-handed 310
Helix 10	AB1	A	394	399	Right-handed 310
Helix 11	AB2	A	455	460	Right-handed 310
Helix 12	AB3	A	497	500	Right-handed 310
Helix 13	AB4	A	509	513	Right-handed 310
Helix 14	AB5	B	21	25	Right-handed 310
Helix 15	AB6	B	67	70	Right-handed 310
Helix 16	AB7	B	136	140	Right-handed 310
Helix 17	AB8	B	277	279	Right-handed 310
Helix 18	AB9	B	310	314	Right-handed 310
Helix 19	AC1	B	362	373	Right-handed alpha
Helix 20	AC2	B	374	376	Right-handed 310
Helix 21	AC3	B	384	388	Right-handed 310
Helix 22	AC4	B	394	399	Right-handed 310
Helix 23	AC5	B	456	460	Right-handed 310
Helix 24	AC6	B	497	500	Right-handed 310
Helix 25	AC7	B	509	513	Right-handed 310

There are 18 sheets in PDB entry 8JD7. 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, AB6, AB7, AB8, AB9,

There are 3 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	14	15	first strand
Strand 2	A	390	393	parallel
Strand 3	A	406	409	anti-parallel

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There are 5 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	49	52	first strand
Strand 2	A	72	78	anti-parallel
Strand 3	A	86	91	anti-parallel
Strand 4	A	96	101	anti-parallel
Strand 5	A	104	105	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	A	191	192	first strand
Strand 2	A	152	154	anti-parallel
Strand 3	A	123	127	anti-parallel
Strand 4	A	233	241	anti-parallel
Strand 5	A	335	342	anti-parallel
Strand 6	A	317	325	anti-parallel
Strand 7	A	264	265	parallel

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There are 7 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	191	192	first strand
Strand 2	A	152	154	anti-parallel
Strand 3	A	123	127	anti-parallel
Strand 4	A	233	241	anti-parallel
Strand 5	A	335	342	anti-parallel
Strand 6	A	317	325	anti-parallel
Strand 7	A	272	275	anti-parallel

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There are 9 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	172	178	first strand
Strand 2	A	183	189	anti-parallel
Strand 3	A	203	213	anti-parallel
Strand 4	A	216	225	anti-parallel
Strand 5	A	350	361	anti-parallel
Strand 6	A	295	300	anti-parallel
Strand 7	A	282	286	anti-parallel
Strand 8	A	248	252	anti-parallel
Strand 9	A	258	260	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	172	178	first strand
Strand 2	A	183	189	anti-parallel
Strand 3	A	203	213	anti-parallel
Strand 4	A	216	225	anti-parallel
Strand 5	A	350	361	anti-parallel
Strand 6	A	377	380	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	430	433	first strand
Strand 2	A	417	424	anti-parallel
Strand 3	A	472	481	anti-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	A	442	444	first strand
Strand 2	A	463	465	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	A	493	495	first strand
Strand 2	A	517	519	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	14	15	first strand
Strand 2	B	390	393	parallel
Strand 3	B	406	409	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	49	52	first strand
Strand 2	B	72	78	anti-parallel
Strand 3	B	86	91	anti-parallel
Strand 4	B	96	101	anti-parallel
Strand 5	B	104	105	anti-parallel

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There are 8 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	191	192	first strand
Strand 2	B	153	154	anti-parallel
Strand 3	B	123	127	anti-parallel
Strand 4	B	233	241	anti-parallel
Strand 5	B	335	342	anti-parallel
Strand 6	B	317	325	anti-parallel
Strand 7	B	264	266	parallel
Strand 8	B	269	270	anti-parallel

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There are 7 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	191	192	first strand
Strand 2	B	153	154	anti-parallel
Strand 3	B	123	127	anti-parallel
Strand 4	B	233	241	anti-parallel
Strand 5	B	335	342	anti-parallel
Strand 6	B	317	325	anti-parallel
Strand 7	B	272	275	anti-parallel

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There are 9 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	172	178	first strand
Strand 2	B	183	189	anti-parallel
Strand 3	B	203	213	anti-parallel
Strand 4	B	216	225	anti-parallel
Strand 5	B	350	361	anti-parallel
Strand 6	B	295	300	anti-parallel
Strand 7	B	282	286	anti-parallel
Strand 8	B	248	252	anti-parallel
Strand 9	B	258	260	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	172	178	first strand
Strand 2	B	183	189	anti-parallel
Strand 3	B	203	213	anti-parallel
Strand 4	B	216	225	anti-parallel
Strand 5	B	350	361	anti-parallel
Strand 6	B	377	380	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	430	433	first strand
Strand 2	B	417	424	anti-parallel
Strand 3	B	472	481	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	442	444	first strand
Strand 2	B	463	465	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	493	495	first strand
Strand 2	B	517	519	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: 8JD7

Analysis of interatomic Contacts of Structural Units in PDB entry:
8JD7