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

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 3KSD entry

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

Chain ID	Initial residue	Terminal residue
Q	ALA 2	LEU 334
R	MET 1	GLU 333
O	ALA 2	LEU 334
P	ALA 2	GLN 323

There are 58 helices in PDB entry 3KSD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	Q	11	22	Right-handed alpha
Helix 2	2	Q	37	47	Right-handed alpha
Helix 3	3	Q	79	83	Right-handed 310
Helix 4	4	Q	84	89	Right-handed alpha
Helix 5	5	Q	102	107	Right-handed alpha
Helix 6	6	Q	107	112	Right-handed alpha
Helix 7	7	Q	135	139	Right-handed 310
Helix 8	8	Q	150	168	Right-handed alpha
Helix 9	9	Q	201	205	Right-handed 310
Helix 10	10	Q	216	220	Right-handed 310
Helix 11	11	Q	221	225	Right-handed 310
Helix 12	12	Q	255	266	Right-handed alpha
Helix 13	13	Q	279	284	Right-handed 310
Helix 14	14	Q	295	297	Right-handed 310
Helix 15	15	Q	317	333	Right-handed alpha
Helix 16	16	R	11	23	Right-handed alpha
Helix 17	17	R	37	47	Right-handed alpha
Helix 18	18	R	79	83	Right-handed 310
Helix 19	19	R	84	89	Right-handed alpha
Helix 20	20	R	102	107	Right-handed alpha
Helix 21	21	R	107	112	Right-handed alpha
Helix 22	22	R	135	139	Right-handed 310
Helix 23	23	R	150	168	Right-handed alpha
Helix 24	24	R	201	205	Right-handed 310
Helix 25	25	R	216	220	Right-handed 310
Helix 26	26	R	221	225	Right-handed 310
Helix 27	27	R	255	266	Right-handed alpha
Helix 28	28	R	279	284	Right-handed 310
Helix 29	29	R	295	297	Right-handed 310
Helix 30	30	R	317	333	Right-handed alpha
Helix 31	31	O	11	23	Right-handed alpha
Helix 32	32	O	37	47	Right-handed alpha
Helix 33	33	O	79	83	Right-handed 310
Helix 34	34	O	84	89	Right-handed alpha
Helix 35	35	O	102	107	Right-handed alpha
Helix 36	36	O	107	112	Right-handed alpha
Helix 37	37	O	135	139	Right-handed 310
Helix 38	38	O	150	168	Right-handed alpha
Helix 39	39	O	201	205	Right-handed 310
Helix 40	40	O	216	220	Right-handed 310
Helix 41	41	O	221	225	Right-handed 310
Helix 42	42	O	255	267	Right-handed alpha
Helix 43	43	O	279	284	Right-handed 310
Helix 44	44	O	295	297	Right-handed 310
Helix 45	45	O	317	333	Right-handed alpha
Helix 46	46	P	11	23	Right-handed alpha
Helix 47	47	P	37	47	Right-handed alpha
Helix 48	48	P	79	83	Right-handed 310
Helix 49	49	P	84	89	Right-handed alpha
Helix 50	50	P	102	113	Right-handed alpha
Helix 51	51	P	135	139	Right-handed 310
Helix 52	52	P	150	168	Right-handed alpha
Helix 53	53	P	216	220	Right-handed 310
Helix 54	54	P	221	225	Right-handed 310
Helix 55	55	P	255	266	Right-handed alpha
Helix 56	56	P	279	284	Right-handed 310
Helix 57	57	P	295	297	Right-handed 310
Helix 58	58	P	317	333	Right-handed alpha

There are 12 sheets in PDB entry 3KSD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

There are 9 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	58	60	first strand
Strand 2	Q	64	67	anti-parallel
Strand 3	Q	70	75	anti-parallel
Strand 4	Q	27	33	parallel
Strand 5	Q	3	8	parallel
Strand 6	Q	92	95	parallel
Strand 7	Q	116	119	parallel
Strand 8	Q	145	147	parallel
Strand 9	Q	128	129	parallel

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There are 7 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	207	210	first strand
Strand 2	Q	228	235	anti-parallel
Strand 3	Q	169	179	parallel
Strand 4	Q	241	249	anti-parallel
Strand 5	Q	305	314	anti-parallel
Strand 6	Q	290	293	anti-parallel
Strand 7	Q	271	274	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	207	210	first strand
Strand 2	Q	228	235	anti-parallel
Strand 3	Q	169	179	parallel
Strand 4	Q	241	249	anti-parallel
Strand 5	Q	305	314	anti-parallel
Strand 6	Q	298	302	anti-parallel

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There are 9 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	58	60	first strand
Strand 2	R	64	67	anti-parallel
Strand 3	R	70	75	anti-parallel
Strand 4	R	27	33	parallel
Strand 5	R	3	8	parallel
Strand 6	R	92	95	parallel
Strand 7	R	116	119	parallel
Strand 8	R	145	147	parallel
Strand 9	R	128	129	parallel

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There are 7 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	207	210	first strand
Strand 2	R	228	235	anti-parallel
Strand 3	R	169	179	parallel
Strand 4	R	241	249	anti-parallel
Strand 5	R	305	314	anti-parallel
Strand 6	R	290	293	anti-parallel
Strand 7	R	271	274	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	207	210	first strand
Strand 2	R	228	235	anti-parallel
Strand 3	R	169	179	parallel
Strand 4	R	241	249	anti-parallel
Strand 5	R	305	314	anti-parallel
Strand 6	R	298	302	anti-parallel

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There are 9 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	58	60	first strand
Strand 2	O	64	67	anti-parallel
Strand 3	O	70	75	anti-parallel
Strand 4	O	27	33	parallel
Strand 5	O	3	8	parallel
Strand 6	O	92	95	parallel
Strand 7	O	116	119	parallel
Strand 8	O	145	147	parallel
Strand 9	O	128	129	parallel

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There are 7 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	207	209	first strand
Strand 2	O	228	235	anti-parallel
Strand 3	O	169	179	parallel
Strand 4	O	241	249	anti-parallel
Strand 5	O	307	314	anti-parallel
Strand 6	O	290	293	anti-parallel
Strand 7	O	271	274	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	207	209	first strand
Strand 2	O	228	235	anti-parallel
Strand 3	O	169	179	parallel
Strand 4	O	241	249	anti-parallel
Strand 5	O	307	314	anti-parallel
Strand 6	O	298	300	anti-parallel

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There are 9 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	58	60	first strand
Strand 2	P	64	67	anti-parallel
Strand 3	P	70	75	anti-parallel
Strand 4	P	27	33	parallel
Strand 5	P	3	8	parallel
Strand 6	P	92	95	parallel
Strand 7	P	116	119	parallel
Strand 8	P	145	147	parallel
Strand 9	P	128	129	parallel

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There are 7 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	207	210	first strand
Strand 2	P	228	235	anti-parallel
Strand 3	P	169	179	parallel
Strand 4	P	241	249	anti-parallel
Strand 5	P	305	314	anti-parallel
Strand 6	P	290	293	anti-parallel
Strand 7	P	271	274	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	207	210	first strand
Strand 2	P	228	235	anti-parallel
Strand 3	P	169	179	parallel
Strand 4	P	241	249	anti-parallel
Strand 5	P	305	314	anti-parallel
Strand 6	P	298	302	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: 3KSD

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