Analysis of interatomic Contacts of Structural Units in PDB entry:
6JFD

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 6JFD entry

There are 4 chains in PDB entry 6JFD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 4	LEU 171
B	ILE 4	LEU 171
C	ILE 4	VAL 170
D	ILE 4	LEU 171

There are 28 helices in PDB entry 6JFD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	12	16	Right-handed 310
Helix 2	AA2	A	23	27	Right-handed 310
Helix 3	AA3	A	29	46	Right-handed alpha
Helix 4	AA4	A	54	57	Right-handed 310
Helix 5	AA5	A	137	150	Right-handed alpha
Helix 6	AA6	A	154	159	Right-handed 310
Helix 7	AA7	A	161	165	Right-handed 310
Helix 8	AA8	B	12	17	Right-handed 310
Helix 9	AA9	B	23	27	Right-handed 310
Helix 10	AB1	B	29	46	Right-handed alpha
Helix 11	AB2	B	54	57	Right-handed 310
Helix 12	AB3	B	137	149	Right-handed alpha
Helix 13	AB4	B	154	159	Right-handed 310
Helix 14	AB5	B	161	163	Right-handed 310
Helix 15	AB6	C	12	17	Right-handed 310
Helix 16	AB7	C	23	27	Right-handed 310
Helix 17	AB8	C	29	46	Right-handed alpha
Helix 18	AB9	C	54	57	Right-handed 310
Helix 19	AC1	C	137	150	Right-handed alpha
Helix 20	AC2	C	154	159	Right-handed 310
Helix 21	AC3	D	12	17	Right-handed 310
Helix 22	AC4	D	23	27	Right-handed 310
Helix 23	AC5	D	29	46	Right-handed alpha
Helix 24	AC6	D	54	57	Right-handed 310
Helix 25	AC7	D	137	149	Right-handed alpha
Helix 26	AC8	D	150	152	Right-handed 310
Helix 27	AC9	D	154	159	Right-handed 310
Helix 28	AD1	D	161	165	Right-handed 310

There are 8 sheets in PDB entry 6JFD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 5 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	50	52	first strand
Strand 2	A	62	67	anti-parallel
Strand 3	A	79	91	anti-parallel
Strand 4	A	118	124	anti-parallel
Strand 5	A	130	136	anti-parallel

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There are 3 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	96	101	first strand
Strand 2	A	109	116	anti-parallel
Strand 3	A	166	167	anti-parallel

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There are 5 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	50	52	first strand
Strand 2	B	62	67	anti-parallel
Strand 3	B	79	91	anti-parallel
Strand 4	B	118	124	anti-parallel
Strand 5	B	130	136	anti-parallel

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There are 3 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	96	101	first strand
Strand 2	B	109	116	anti-parallel
Strand 3	B	165	167	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	50	52	first strand
Strand 2	C	62	67	anti-parallel
Strand 3	C	79	91	anti-parallel
Strand 4	C	118	124	anti-parallel
Strand 5	C	130	136	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	C	96	101	first strand
Strand 2	C	109	116	anti-parallel
Strand 3	C	166	167	anti-parallel

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There are 5 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	50	52	first strand
Strand 2	D	62	67	anti-parallel
Strand 3	D	79	91	anti-parallel
Strand 4	D	118	124	anti-parallel
Strand 5	D	130	136	anti-parallel

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There are 3 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	96	101	first strand
Strand 2	D	109	116	anti-parallel
Strand 3	D	166	167	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: 6JFD

Analysis of interatomic Contacts of Structural Units in PDB entry:
6JFD