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

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 6GDG entry

There are 5 chains in PDB entry 6GDG (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 7	PHE 299
B	ASP 5	ASN 340
C	GLN 11	VAL 54
D	GLN 12	LEU 384
E	GLN 1	SER 128

There are 29 helices in PDB entry 6GDG. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	7	34	Right-handed alpha
Helix 2	AA2	A	39	59	Right-handed alpha
Helix 3	AA3	A	60	69	Right-handed alpha
Helix 4	AA4	A	73	108	Right-handed alpha
Helix 5	AA5	A	111	116	Right-handed alpha
Helix 6	AA6	A	117	137	Right-handed alpha
Helix 7	AA7	A	167	172	Right-handed alpha
Helix 8	AA8	A	173	180	Right-handed alpha
Helix 9	AA9	A	180	186	Right-handed alpha
Helix 10	AB1	A	186	209	Right-handed alpha
Helix 11	AB2	A	225	259	Right-handed alpha
Helix 12	AB3	A	266	288	Right-handed alpha
Helix 13	AB4	A	292	299	Right-handed alpha
Helix 14	AB5	B	6	26	Right-handed alpha
Helix 15	AB6	B	29	34	Right-handed alpha
Helix 16	AB7	C	12	24	Right-handed alpha
Helix 17	AB8	C	29	45	Right-handed alpha
Helix 18	AB9	D	13	40	Right-handed alpha
Helix 19	AC1	D	52	57	Right-handed alpha
Helix 20	AC2	D	234	238	Right-handed 310
Helix 21	AC3	D	252	269	Right-handed alpha
Helix 22	AC4	D	283	294	Right-handed alpha
Helix 23	AC5	D	297	302	Right-handed alpha
Helix 24	AC6	D	303	308	Right-handed 310
Helix 25	AC7	D	321	341	Right-handed alpha
Helix 26	AC8	D	361	381	Right-handed alpha
Helix 27	AC9	E	28	32	Right-handed 310
Helix 28	AD1	E	62	65	Right-handed 310
Helix 29	AD2	E	87	91	Right-handed 310

There are 12 sheets in PDB entry 6GDG. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	47	52	first strand
Strand 2	B	335	339	anti-parallel
Strand 3	B	327	329	anti-parallel
Strand 4	B	319	320	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	58	63	first strand
Strand 2	B	69	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	88	94	anti-parallel

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There are 4 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	102	105	first strand
Strand 2	B	111	115	anti-parallel
Strand 3	B	121	125	anti-parallel
Strand 4	B	134	139	anti-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	148	151	first strand
Strand 2	B	156	160	anti-parallel
Strand 3	B	165	170	anti-parallel
Strand 4	B	175	181	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	187	192	first strand
Strand 2	B	198	203	anti-parallel
Strand 3	B	209	212	anti-parallel
Strand 4	B	217	221	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	233	234	first strand
Strand 2	B	240	242	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	259	264	anti-parallel

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There are 4 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	273	277	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	293	298	anti-parallel
Strand 4	B	304	309	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	41	44	first strand
Strand 2	D	218	222	parallel
Strand 3	D	209	213	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	D	243	244	first strand
Strand 2	D	276	277	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	D	247	249	first strand
Strand 2	D	280	282	parallel
Strand 3	D	352	353	parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	7	first strand
Strand 2	E	17	24	anti-parallel
Strand 3	E	78	84	anti-parallel
Strand 4	E	70	73	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	11	12	first strand
Strand 2	E	122	126	parallel
Strand 3	E	92	98	anti-parallel
Strand 4	E	34	39	anti-parallel
Strand 5	E	45	51	anti-parallel
Strand 6	E	59	60	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: 6GDG

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