Analysis of interatomic Contacts of Structural Units in PDB entry:
3KGD

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 3KGD entry

There are 4 chains in PDB entry 3KGD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 4	GLU 339
B	HIS -13	GLU 339
C	MET 2	GLU 339
D	ARG 0	TYR 274

There are 39 helices in PDB entry 3KGD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	17	31	Right-handed alpha
Helix 2	2	A	49	64	Right-handed alpha
Helix 3	3	A	99	111	Right-handed alpha
Helix 4	4	A	132	139	Right-handed alpha
Helix 5	5	A	139	148	Right-handed alpha
Helix 6	6	A	202	215	Right-handed alpha
Helix 7	7	A	228	232	Right-handed 310
Helix 8	8	A	259	276	Right-handed alpha
Helix 9	9	A	282	297	Right-handed alpha
Helix 10	10	A	307	321	Right-handed alpha
Helix 11	11	B	17	31	Right-handed alpha
Helix 12	12	B	49	64	Right-handed alpha
Helix 13	13	B	98	111	Right-handed alpha
Helix 14	14	B	132	139	Right-handed alpha
Helix 15	15	B	139	148	Right-handed alpha
Helix 16	16	B	202	215	Right-handed alpha
Helix 17	17	B	259	276	Right-handed alpha
Helix 18	18	B	282	297	Right-handed alpha
Helix 19	19	B	307	321	Right-handed alpha
Helix 20	20	C	17	31	Right-handed alpha
Helix 21	21	C	49	64	Right-handed alpha
Helix 22	22	C	99	111	Right-handed alpha
Helix 23	23	C	132	139	Right-handed alpha
Helix 24	24	C	139	148	Right-handed alpha
Helix 25	25	C	202	217	Right-handed alpha
Helix 26	26	C	228	232	Right-handed 310
Helix 27	27	C	259	276	Right-handed alpha
Helix 28	28	C	282	297	Right-handed alpha
Helix 29	29	C	307	321	Right-handed alpha
Helix 30	30	D	17	31	Right-handed alpha
Helix 31	31	D	49	64	Right-handed alpha
Helix 32	32	D	98	111	Right-handed alpha
Helix 33	33	D	132	139	Right-handed alpha
Helix 34	34	D	139	148	Right-handed alpha
Helix 35	35	D	203	217	Right-handed alpha
Helix 36	36	D	228	232	Right-handed 310
Helix 37	37	D	259	276	Right-handed alpha
Helix 38	38	D	282	297	Right-handed alpha
Helix 39	39	D	307	321	Right-handed alpha

There are 15 sheets in PDB entry 3KGD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	6	9	first strand
Strand 2	A	34	37	parallel
Strand 3	A	77	80	anti-parallel
Strand 4	A	66	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	88	98	first strand
Strand 2	A	117	124	parallel
Strand 3	A	166	172	anti-parallel
Strand 4	A	151	157	anti-parallel

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There are 8 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	247	253	first strand
Strand 2	A	234	243	anti-parallel
Strand 3	A	189	199	anti-parallel
Strand 4	A	221	227	parallel
Strand 5	B	221	226	anti-parallel
Strand 6	B	189	199	parallel
Strand 7	B	234	243	anti-parallel
Strand 8	B	247	253	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	300	303	first strand
Strand 2	A	333	338	anti-parallel
Strand 3	A	325	330	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	6	9	first strand
Strand 2	B	34	37	parallel
Strand 3	B	77	80	anti-parallel
Strand 4	B	66	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	88	92	first strand
Strand 2	B	117	123	parallel
Strand 3	B	166	173	anti-parallel
Strand 4	B	150	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	181	182	first strand
Strand 2	B	299	303	parallel
Strand 3	B	333	338	anti-parallel
Strand 4	B	325	330	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	6	9	first strand
Strand 2	C	34	37	parallel
Strand 3	C	77	80	anti-parallel
Strand 4	C	66	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	88	98	first strand
Strand 2	C	117	124	parallel
Strand 3	C	166	172	anti-parallel
Strand 4	C	151	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	221	227	first strand
Strand 2	C	189	199	parallel
Strand 3	C	234	243	anti-parallel
Strand 4	C	247	253	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	300	303	first strand
Strand 2	C	333	338	anti-parallel
Strand 3	C	325	330	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	6	9	first strand
Strand 2	D	34	37	parallel
Strand 3	D	77	80	anti-parallel
Strand 4	D	66	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	88	92	first strand
Strand 2	D	117	123	parallel
Strand 3	D	166	172	anti-parallel
Strand 4	D	151	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	221	226	first strand
Strand 2	D	189	199	parallel
Strand 3	D	234	243	anti-parallel
Strand 4	D	247	253	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	300	303	first strand
Strand 2	D	333	338	anti-parallel
Strand 3	D	325	330	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: 3KGD

Analysis of interatomic Contacts of Structural Units in PDB entry:
3KGD