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

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 8GDC entry

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

Chain ID	Initial residue	Terminal residue
A	LEU 5	PHE 354
B	SER 31	ASN 340
C	ARG 27	PHE 61
R	VAL 52	LEU 353

There are 25 helices in PDB entry 8GDC. 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	32	Right-handed alpha
Helix 2	AA2	A	46	53	Right-handed alpha
Helix 3	AA3	A	207	212	Right-handed alpha
Helix 4	AA4	A	213	216	Right-handed 310
Helix 5	AA5	A	244	255	Right-handed alpha
Helix 6	AA6	A	271	281	Right-handed alpha
Helix 7	AA7	A	295	308	Right-handed alpha
Helix 8	AA8	A	309	311	Right-handed 310
Helix 9	AA9	A	332	340	Right-handed alpha
Helix 10	AB1	A	341	351	Right-handed alpha
Helix 11	AB2	B	32	37	Right-handed 310
Helix 12	AB3	C	29	43	Right-handed alpha
Helix 13	AB4	R	53	76	Right-handed alpha
Helix 14	AB5	R	88	105	Right-handed alpha
Helix 15	AB6	R	106	117	Right-handed alpha
Helix 16	AB7	R	119	124	Right-handed alpha
Helix 17	AB8	R	128	161	Right-handed alpha
Helix 18	AB9	R	163	169	Right-handed alpha
Helix 19	AC1	R	180	190	Right-handed alpha
Helix 20	AC2	R	227	262	Right-handed alpha
Helix 21	AC3	R	272	284	Right-handed alpha
Helix 22	AC4	R	285	294	Right-handed alpha
Helix 23	AC5	R	296	307	Right-handed alpha
Helix 24	AC6	R	326	348	Right-handed alpha
Helix 25	AC7	R	348	353	Right-handed alpha

There are 11 sheets in PDB entry 8GDC. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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	36	37	first strand
Strand 2	A	220	221	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	186	190	first strand
Strand 2	A	195	199	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	223	225	first strand
Strand 2	A	265	268	parallel
Strand 3	A	320	321	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	51	52	first strand
Strand 2	B	335	339	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	317	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	62	63	first strand
Strand 2	B	69	73	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	89	94	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	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	121	125	anti-parallel
Strand 4	B	134	139	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	B	146	151	first strand
Strand 2	B	157	161	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	B	200	202	first strand
Strand 2	B	208	210	anti-parallel
Strand 3	B	220	222	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	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	260	264	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	276	278	first strand
Strand 2	B	284	287	anti-parallel
Strand 3	B	297	298	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	199	201	first strand
Strand 2	R	208	210	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: 8GDC

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