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

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 6FDM entry

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

Chain ID	Initial residue	Terminal residue
A	VAL 6	ASP 312
B	MET 12	ASP 313
C	LYS 8	ASP 312
D	MET 12	ASP 313

There are 41 helices in PDB entry 6FDM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	13	Right-handed 310
Helix 2	AA2	A	14	27	Right-handed alpha
Helix 3	AA3	A	34	43	Right-handed alpha
Helix 4	AA4	A	48	59	Right-handed alpha
Helix 5	AA5	A	76	91	Right-handed alpha
Helix 6	AA6	A	130	171	Right-handed alpha
Helix 7	AA7	A	197	199	Right-handed 310
Helix 8	AA8	A	204	222	Right-handed alpha
Helix 9	AA9	A	257	278	Right-handed alpha
Helix 10	AB1	A	286	290	Right-handed 310
Helix 11	AB2	A	298	312	Right-handed alpha
Helix 12	AB3	B	13	27	Right-handed alpha
Helix 13	AB4	B	34	43	Right-handed alpha
Helix 14	AB5	B	48	59	Right-handed alpha
Helix 15	AB6	B	76	91	Right-handed alpha
Helix 16	AB7	B	130	170	Right-handed alpha
Helix 17	AB8	B	197	199	Right-handed 310
Helix 18	AB9	B	204	222	Right-handed alpha
Helix 19	AC1	B	257	278	Right-handed alpha
Helix 20	AC2	B	286	290	Right-handed 310
Helix 21	AC3	B	298	313	Right-handed alpha
Helix 22	AC4	C	13	27	Right-handed alpha
Helix 23	AC5	C	34	43	Right-handed alpha
Helix 24	AC6	C	48	59	Right-handed alpha
Helix 25	AC7	C	76	91	Right-handed alpha
Helix 26	AC8	C	130	170	Right-handed alpha
Helix 27	AC9	C	197	199	Right-handed 310
Helix 28	AD1	C	204	222	Right-handed alpha
Helix 29	AD2	C	257	278	Right-handed alpha
Helix 30	AD3	C	286	290	Right-handed 310
Helix 31	AD4	C	298	312	Right-handed alpha
Helix 32	AD5	D	13	27	Right-handed alpha
Helix 33	AD6	D	34	43	Right-handed alpha
Helix 34	AD7	D	48	59	Right-handed alpha
Helix 35	AD8	D	76	91	Right-handed alpha
Helix 36	AD9	D	130	170	Right-handed alpha
Helix 37	AE1	D	197	199	Right-handed 310
Helix 38	AE2	D	204	222	Right-handed alpha
Helix 39	AE3	D	257	278	Right-handed alpha
Helix 40	AE4	D	286	290	Right-handed 310
Helix 41	AE5	D	297	313	Right-handed alpha

There are 16 sheets in PDB entry 6FDM. 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,

There are 2 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	62	66	first strand
Strand 2	A	71	75	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	96	104	first strand
Strand 2	A	107	113	anti-parallel
Strand 3	A	119	125	anti-parallel
Strand 4	A	185	189	anti-parallel
Strand 5	A	178	182	anti-parallel

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There are 3 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	193	195	first strand
Strand 2	A	234	237	anti-parallel
Strand 3	A	242	244	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	A	224	225	first strand
Strand 2	A	251	252	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	B	62	66	first strand
Strand 2	B	71	75	anti-parallel

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There are 5 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	96	104	first strand
Strand 2	B	107	113	anti-parallel
Strand 3	B	119	125	anti-parallel
Strand 4	B	185	189	anti-parallel
Strand 5	B	178	182	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	B	193	195	first strand
Strand 2	B	234	237	anti-parallel
Strand 3	B	242	244	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	B	224	225	first strand
Strand 2	B	251	252	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	62	66	first strand
Strand 2	C	71	75	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	C	96	104	first strand
Strand 2	C	107	113	anti-parallel
Strand 3	C	119	125	anti-parallel
Strand 4	C	185	189	anti-parallel
Strand 5	C	178	182	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	193	195	first strand
Strand 2	C	234	237	anti-parallel
Strand 3	C	242	244	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	224	225	first strand
Strand 2	C	251	252	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	62	67	first strand
Strand 2	D	70	75	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	96	104	first strand
Strand 2	D	107	113	anti-parallel
Strand 3	D	119	125	anti-parallel
Strand 4	D	185	189	anti-parallel
Strand 5	D	178	182	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	193	195	first strand
Strand 2	D	234	237	anti-parallel
Strand 3	D	242	244	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	224	225	first strand
Strand 2	D	251	252	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: 6FDM

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