Analysis of interatomic Contacts of Structural Units in PDB entry:
1PKQ

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 1PKQ entry

There are 6 chains in PDB entry 1PKQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 1	GLU 213
B	GLU 1	CYS 216
E	GLY 1	PHE 119
F	ASP 1	ASN 210
G	GLU 1	PRO 213
J	GLY 1	PRO 118

There are 28 helices in PDB entry 1PKQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	79	83	Right-handed 310
Helix 2	2	A	121	126	Right-handed alpha
Helix 3	3	A	183	188	Right-handed alpha
Helix 4	4	B	28	32	Right-handed 310
Helix 5	5	B	61	64	Right-handed 310
Helix 6	6	B	73	75	Right-handed 310
Helix 7	7	B	83	87	Right-handed 310
Helix 8	8	B	156	158	Right-handed 310
Helix 9	9	B	187	191	Right-handed 310
Helix 10	10	B	201	204	Right-handed 310
Helix 11	11	E	58	61	Right-handed 310
Helix 12	12	E	62	66	Right-handed 310
Helix 13	13	E	75	78	Right-handed 310
Helix 14	14	E	89	93	Right-handed 310
Helix 15	15	F	79	83	Right-handed 310
Helix 16	16	F	121	126	Right-handed alpha
Helix 17	17	F	183	187	Right-handed alpha
Helix 18	18	G	28	32	Right-handed 310
Helix 19	19	G	61	64	Right-handed 310
Helix 20	20	G	73	75	Right-handed 310
Helix 21	21	G	83	87	Right-handed 310
Helix 22	22	G	156	158	Right-handed 310
Helix 23	23	G	187	191	Right-handed 310
Helix 24	24	G	201	204	Right-handed 310
Helix 25	25	J	58	61	Right-handed 310
Helix 26	26	J	62	66	Right-handed 310
Helix 27	27	J	75	78	Right-handed 310
Helix 28	28	J	89	93	Right-handed 310

There are 22 sheets in PDB entry 1PKQ. 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, P, Q, R, S, T, U, V,

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	4	7	first strand
Strand 2	A	19	25	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	62	67	anti-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	A	10	13	first strand
Strand 2	A	102	106	parallel
Strand 3	A	84	90	anti-parallel
Strand 4	A	97	98	anti-parallel
Strand 5	A	84	90	anti-parallel
Strand 6	A	33	38	anti-parallel
Strand 7	A	45	48	anti-parallel

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There are 2 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	30	30	first strand
Strand 2	A	30	31	anti-parallel

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There are 4 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	114	118	first strand
Strand 2	A	129	139	anti-parallel
Strand 3	A	173	182	anti-parallel
Strand 4	A	159	163	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	A	153	154	first strand
Strand 2	A	145	150	anti-parallel
Strand 3	A	191	197	anti-parallel
Strand 4	A	205	210	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	3	7	first strand
Strand 2	B	17	25	anti-parallel
Strand 3	B	77	82	anti-parallel
Strand 4	B	69	72	anti-parallel

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There are 8 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	11	12	first strand
Strand 2	B	107	111	parallel
Strand 3	B	88	94	anti-parallel
Strand 4	B	102	103	anti-parallel
Strand 5	B	88	94	anti-parallel
Strand 6	B	34	39	anti-parallel
Strand 7	B	45	52	anti-parallel
Strand 8	B	56	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	120	124	first strand
Strand 2	B	135	145	anti-parallel
Strand 3	B	131	132	anti-parallel
Strand 4	B	135	145	anti-parallel
Strand 5	B	176	185	anti-parallel
Strand 6	B	163	165	anti-parallel
Strand 7	B	176	185	anti-parallel
Strand 8	B	169	170	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	151	154	first strand
Strand 2	B	195	200	anti-parallel
Strand 3	B	205	210	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	E	4	6	first strand
Strand 2	E	20	27	anti-parallel
Strand 3	E	80	85	anti-parallel
Strand 4	E	71	72	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	12	15	first strand
Strand 2	E	105	116	parallel
Strand 3	E	94	102	anti-parallel
Strand 4	E	36	41	anti-parallel
Strand 5	E	46	52	anti-parallel
Strand 6	E	55	56	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	F	4	7	first strand
Strand 2	F	19	25	anti-parallel
Strand 3	F	70	75	anti-parallel
Strand 4	F	62	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	10	13	first strand
Strand 2	F	102	106	parallel
Strand 3	F	84	90	anti-parallel
Strand 4	F	97	98	anti-parallel
Strand 5	F	84	90	anti-parallel
Strand 6	F	33	38	anti-parallel
Strand 7	F	45	48	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	30	30	first strand
Strand 2	F	30	31	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	114	118	first strand
Strand 2	F	129	139	anti-parallel
Strand 3	F	173	182	anti-parallel
Strand 4	F	159	163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	153	154	first strand
Strand 2	F	145	150	anti-parallel
Strand 3	F	192	197	anti-parallel
Strand 4	F	205	209	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3	7	first strand
Strand 2	G	17	25	anti-parallel
Strand 3	G	77	82	anti-parallel
Strand 4	G	69	72	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	11	12	first strand
Strand 2	G	107	111	parallel
Strand 3	G	88	94	anti-parallel
Strand 4	G	102	103	anti-parallel
Strand 5	G	88	94	anti-parallel
Strand 6	G	34	40	anti-parallel
Strand 7	G	44	52	anti-parallel
Strand 8	G	56	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	120	124	first strand
Strand 2	G	135	145	anti-parallel
Strand 3	G	176	185	anti-parallel
Strand 4	G	163	165	anti-parallel
Strand 5	G	176	185	anti-parallel
Strand 6	G	169	170	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	151	154	first strand
Strand 2	G	195	200	anti-parallel
Strand 3	G	205	210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	4	6	first strand
Strand 2	J	20	27	anti-parallel
Strand 3	J	80	85	anti-parallel
Strand 4	J	71	72	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	12	15	first strand
Strand 2	J	105	116	parallel
Strand 3	J	94	102	anti-parallel
Strand 4	J	36	41	anti-parallel
Strand 5	J	46	52	anti-parallel
Strand 6	J	55	56	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: 1PKQ

Analysis of interatomic Contacts of Structural Units in PDB entry:
1PKQ