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

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 8GDS entry

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

Chain ID	Initial residue	Terminal residue
A	ALA 24	ARG 417
B	ALA 24	ARG 417
C	ALA 24	ARG 417
D	ALA 24	ARG 417

There are 80 helices in PDB entry 8GDS. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	24	36	Right-handed alpha
Helix 2	AA2	A	42	58	Right-handed alpha
Helix 3	AA3	A	61	64	Right-handed 310
Helix 4	AA4	A	65	86	Right-handed alpha
Helix 5	AA5	A	88	90	Right-handed 310
Helix 6	AA6	A	125	130	Right-handed alpha
Helix 7	AA7	A	138	148	Right-handed alpha
Helix 8	AA8	A	176	184	Right-handed alpha
Helix 9	AA9	A	187	208	Right-handed alpha
Helix 10	AB1	A	216	218	Right-handed 310
Helix 11	AB2	A	258	265	Right-handed alpha
Helix 12	AB3	A	273	290	Right-handed alpha
Helix 13	AB4	A	298	308	Right-handed alpha
Helix 14	AB5	A	308	313	Right-handed alpha
Helix 15	AB6	A	322	333	Right-handed alpha
Helix 16	AB7	A	344	351	Right-handed alpha
Helix 17	AB8	A	352	355	Right-handed 310
Helix 18	AB9	A	363	367	Right-handed 310
Helix 19	AC1	A	407	411	Right-handed 310
Helix 20	AC2	B	25	36	Right-handed alpha
Helix 21	AC3	B	42	58	Right-handed alpha
Helix 22	AC4	B	61	64	Right-handed 310
Helix 23	AC5	B	65	86	Right-handed alpha
Helix 24	AC6	B	88	90	Right-handed 310
Helix 25	AC7	B	125	130	Right-handed alpha
Helix 26	AC8	B	138	148	Right-handed alpha
Helix 27	AC9	B	176	184	Right-handed alpha
Helix 28	AD1	B	187	208	Right-handed alpha
Helix 29	AD2	B	216	218	Right-handed 310
Helix 30	AD3	B	258	265	Right-handed alpha
Helix 31	AD4	B	273	290	Right-handed alpha
Helix 32	AD5	B	298	308	Right-handed alpha
Helix 33	AD6	B	308	313	Right-handed alpha
Helix 34	AD7	B	322	333	Right-handed alpha
Helix 35	AD8	B	335	339	Right-handed 310
Helix 36	AD9	B	345	351	Right-handed alpha
Helix 37	AE1	B	352	355	Right-handed 310
Helix 38	AE2	B	363	367	Right-handed 310
Helix 39	AE3	B	407	411	Right-handed 310
Helix 40	AE4	C	25	36	Right-handed alpha
Helix 41	AE5	C	42	58	Right-handed alpha
Helix 42	AE6	C	61	64	Right-handed 310
Helix 43	AE7	C	65	86	Right-handed alpha
Helix 44	AE8	C	88	90	Right-handed 310
Helix 45	AE9	C	125	131	Right-handed alpha
Helix 46	AF1	C	138	148	Right-handed alpha
Helix 47	AF2	C	176	184	Right-handed alpha
Helix 48	AF3	C	187	208	Right-handed alpha
Helix 49	AF4	C	216	218	Right-handed 310
Helix 50	AF5	C	253	257	Right-handed 310
Helix 51	AF6	C	258	265	Right-handed alpha
Helix 52	AF7	C	273	290	Right-handed alpha
Helix 53	AF8	C	298	308	Right-handed alpha
Helix 54	AF9	C	308	313	Right-handed alpha
Helix 55	AG1	C	322	333	Right-handed alpha
Helix 56	AG2	C	335	339	Right-handed 310
Helix 57	AG3	C	345	351	Right-handed alpha
Helix 58	AG4	C	352	355	Right-handed 310
Helix 59	AG5	C	363	367	Right-handed 310
Helix 60	AG6	C	407	411	Right-handed 310
Helix 61	AG7	D	25	36	Right-handed alpha
Helix 62	AG8	D	42	58	Right-handed alpha
Helix 63	AG9	D	61	64	Right-handed 310
Helix 64	AH1	D	65	86	Right-handed alpha
Helix 65	AH2	D	88	90	Right-handed 310
Helix 66	AH3	D	125	130	Right-handed alpha
Helix 67	AH4	D	138	148	Right-handed alpha
Helix 68	AH5	D	176	184	Right-handed alpha
Helix 69	AH6	D	187	208	Right-handed alpha
Helix 70	AH7	D	253	257	Right-handed 310
Helix 71	AH8	D	258	265	Right-handed alpha
Helix 72	AH9	D	273	290	Right-handed alpha
Helix 73	AI1	D	298	308	Right-handed alpha
Helix 74	AI2	D	308	313	Right-handed alpha
Helix 75	AI3	D	322	333	Right-handed alpha
Helix 76	AI4	D	335	339	Right-handed 310
Helix 77	AI5	D	345	351	Right-handed alpha
Helix 78	AI6	D	352	355	Right-handed 310
Helix 79	AI7	D	363	367	Right-handed 310
Helix 80	AI8	D	407	411	Right-handed 310

There are 13 sheets in PDB entry 8GDS. 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,

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	92	100	first strand
Strand 2	A	105	111	anti-parallel
Strand 3	A	117	124	anti-parallel
Strand 4	A	164	169	anti-parallel
Strand 5	A	155	160	anti-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	210	211	first strand
Strand 2	A	237	238	anti-parallel

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There are 2 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	220	222	first strand
Strand 2	A	228	230	anti-parallel

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There are 6 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	92	99	first strand
Strand 2	B	106	111	anti-parallel
Strand 3	B	117	124	anti-parallel
Strand 4	B	164	169	anti-parallel
Strand 5	B	155	160	anti-parallel
Strand 6	B	415	416	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	210	211	first strand
Strand 2	B	237	238	anti-parallel

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There are 2 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	220	222	first strand
Strand 2	B	228	230	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	92	100	first strand
Strand 2	C	105	111	anti-parallel
Strand 3	C	117	124	anti-parallel
Strand 4	C	164	169	anti-parallel
Strand 5	C	155	160	anti-parallel
Strand 6	C	415	416	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	C	210	211	first strand
Strand 2	C	237	238	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	220	222	first strand
Strand 2	C	228	230	anti-parallel

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There are 2 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	245	246	first strand
Strand 2	C	270	271	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	92	100	first strand
Strand 2	D	104	111	anti-parallel
Strand 3	D	117	124	anti-parallel
Strand 4	D	164	169	anti-parallel
Strand 5	D	155	160	anti-parallel
Strand 6	D	415	416	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	D	210	211	first strand
Strand 2	D	237	238	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	220	222	first strand
Strand 2	D	228	230	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: 8GDS

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