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

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 1NKQ entry

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

Chain ID	Initial residue	Terminal residue
A	SER 2	GLU 258
B	SER 302	GLU 558
C	SER 2	GLU 258
D	SER 302	GLU 558
E	SER 2	ARG 257
F	SER 302	GLU 558

There are 55 helices in PDB entry 1NKQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	3	9	Right-handed 310
Helix 2	2	A	22	28	Right-handed 310
Helix 3	3	A	40	42	Right-handed 310
Helix 4	4	A	105	111	Right-handed 310
Helix 5	5	A	125	135	Right-handed alpha
Helix 6	6	A	138	144	Right-handed alpha
Helix 7	7	A	157	163	Right-handed 310
Helix 8	8	A	187	189	Right-handed 310
Helix 9	9	A	192	202	Right-handed alpha
Helix 10	10	B	304	309	Right-handed alpha
Helix 11	11	B	322	326	Right-handed 310
Helix 12	12	B	340	342	Right-handed 310
Helix 13	13	B	405	407	Right-handed 310
Helix 14	14	B	408	412	Right-handed alpha
Helix 15	15	B	425	435	Right-handed alpha
Helix 16	16	B	438	444	Right-handed alpha
Helix 17	17	B	457	463	Right-handed 310
Helix 18	18	B	487	489	Right-handed 310
Helix 19	19	B	492	502	Right-handed alpha
Helix 20	20	C	3	9	Right-handed 310
Helix 21	21	C	22	26	Right-handed 310
Helix 22	22	C	40	42	Right-handed 310
Helix 23	23	C	105	112	Right-handed alpha
Helix 24	24	C	125	133	Right-handed alpha
Helix 25	25	C	138	144	Right-handed alpha
Helix 26	26	C	157	163	Right-handed 310
Helix 27	27	C	165	169	Right-handed alpha
Helix 28	28	C	187	189	Right-handed 310
Helix 29	29	C	192	202	Right-handed alpha
Helix 30	30	D	303	308	Right-handed 310
Helix 31	31	D	340	342	Right-handed 310
Helix 32	32	D	407	412	Right-handed alpha
Helix 33	33	D	425	435	Right-handed alpha
Helix 34	34	D	438	444	Right-handed alpha
Helix 35	35	D	457	463	Right-handed 310
Helix 36	36	D	487	489	Right-handed 310
Helix 37	37	D	492	502	Right-handed alpha
Helix 38	38	E	3	9	Right-handed 310
Helix 39	39	E	22	27	Right-handed 310
Helix 40	40	E	40	42	Right-handed 310
Helix 41	41	E	105	112	Right-handed alpha
Helix 42	42	E	125	134	Right-handed alpha
Helix 43	43	E	138	144	Right-handed alpha
Helix 44	44	E	157	163	Right-handed 310
Helix 45	45	E	165	168	Right-handed 310
Helix 46	46	E	187	189	Right-handed 310
Helix 47	47	E	192	202	Right-handed alpha
Helix 48	48	F	304	309	Right-handed alpha
Helix 49	49	F	340	342	Right-handed 310
Helix 50	50	F	405	411	Right-handed 310
Helix 51	51	F	425	435	Right-handed alpha
Helix 52	52	F	438	444	Right-handed alpha
Helix 53	53	F	457	463	Right-handed 310
Helix 54	54	F	487	489	Right-handed 310
Helix 55	55	F	492	501	Right-handed alpha

There are 24 sheets in PDB entry 1NKQ. 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, W, X,

There are 6 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	36	39	first strand
Strand 2	A	12	15	anti-parallel
Strand 3	A	211	213	parallel
Strand 4	A	88	94	anti-parallel
Strand 5	A	113	120	anti-parallel
Strand 6	A	154	155	anti-parallel

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There are 2 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	44	45	first strand
Strand 2	A	148	149	parallel

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There are 5 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	76	78	first strand
Strand 2	A	238	249	parallel
Strand 3	A	228	235	anti-parallel
Strand 4	A	170	176	anti-parallel
Strand 5	A	179	185	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	123	124	first strand
Strand 2	A	84	86	anti-parallel
Strand 3	A	221	223	anti-parallel

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There are 6 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	336	338	first strand
Strand 2	B	312	315	anti-parallel
Strand 3	B	511	513	parallel
Strand 4	B	388	394	anti-parallel
Strand 5	B	413	420	anti-parallel
Strand 6	B	454	455	anti-parallel

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There are 2 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	344	345	first strand
Strand 2	B	448	449	parallel

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There are 5 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	376	378	first strand
Strand 2	B	538	549	parallel
Strand 3	B	528	535	anti-parallel
Strand 4	B	470	476	anti-parallel
Strand 5	B	479	485	anti-parallel

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There are 3 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	423	424	first strand
Strand 2	B	384	386	anti-parallel
Strand 3	B	521	523	anti-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	C	36	39	first strand
Strand 2	C	12	15	anti-parallel
Strand 3	C	211	213	parallel
Strand 4	C	88	94	anti-parallel
Strand 5	C	113	120	anti-parallel
Strand 6	C	154	155	anti-parallel

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There are 2 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	44	45	first strand
Strand 2	C	148	149	parallel

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There are 5 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	76	78	first strand
Strand 2	C	238	249	parallel
Strand 3	C	228	235	anti-parallel
Strand 4	C	170	176	anti-parallel
Strand 5	C	179	185	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	123	124	first strand
Strand 2	C	84	86	anti-parallel
Strand 3	C	221	223	anti-parallel

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There are 6 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	336	339	first strand
Strand 2	D	312	315	anti-parallel
Strand 3	D	511	513	parallel
Strand 4	D	388	394	anti-parallel
Strand 5	D	413	420	anti-parallel
Strand 6	D	454	455	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	D	344	345	first strand
Strand 2	D	448	449	parallel

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There are 5 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	376	378	first strand
Strand 2	D	538	549	parallel
Strand 3	D	528	535	anti-parallel
Strand 4	D	470	476	anti-parallel
Strand 5	D	479	485	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	423	424	first strand
Strand 2	D	384	386	anti-parallel
Strand 3	D	521	523	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	36	39	first strand
Strand 2	E	12	15	anti-parallel
Strand 3	E	211	213	parallel
Strand 4	E	88	94	anti-parallel
Strand 5	E	113	120	anti-parallel
Strand 6	E	154	155	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	44	45	first strand
Strand 2	E	148	149	parallel

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There are 5 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	76	78	first strand
Strand 2	E	238	249	parallel
Strand 3	E	228	235	anti-parallel
Strand 4	E	170	176	anti-parallel
Strand 5	E	179	185	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	E	123	124	first strand
Strand 2	E	84	86	anti-parallel
Strand 3	E	221	223	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	336	339	first strand
Strand 2	F	312	315	anti-parallel
Strand 3	F	511	513	parallel
Strand 4	F	388	394	anti-parallel
Strand 5	F	413	420	anti-parallel
Strand 6	F	454	455	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	344	345	first strand
Strand 2	F	448	449	parallel

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There are 5 strands in W sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	376	378	first strand
Strand 2	F	538	549	parallel
Strand 3	F	528	535	anti-parallel
Strand 4	F	470	476	anti-parallel
Strand 5	F	479	485	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	423	424	first strand
Strand 2	F	384	385	anti-parallel
Strand 3	F	522	523	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: 1NKQ

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