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

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 3NJP entry

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

Chain ID	Initial residue	Terminal residue
A	LEU 1	THR 614
B	LEU 1	THR 614
C	GLU 5	GLU 51
D	GLU 5	GLU 24

There are 38 helices in PDB entry 3NJP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	19	32	Right-handed alpha
Helix 2	2	A	52	58	Right-handed 310
Helix 3	3	A	134	138	Right-handed 310
Helix 4	4	A	139	144	Right-handed alpha
Helix 5	5	A	170	174	Right-handed 310
Helix 6	6	A	203	207	Right-handed 310
Helix 7	7	A	318	322	Right-handed 310
Helix 8	8	A	330	336	Right-handed 310
Helix 9	9	A	348	354	Right-handed alpha
Helix 10	10	A	364	374	Right-handed 310
Helix 11	11	A	393	397	Right-handed 310
Helix 12	12	A	407	410	Right-handed 310
Helix 13	13	A	447	451	Right-handed 310
Helix 14	14	A	452	457	Right-handed alpha
Helix 15	15	A	471	478	Right-handed alpha
Helix 16	16	A	551	555	Right-handed 310
Helix 17	17	A	578	580	Right-handed 310
Helix 18	18	A	608	612	Right-handed 310
Helix 19	19	B	19	32	Right-handed alpha
Helix 20	20	B	52	57	Right-handed 310
Helix 21	21	B	88	91	Right-handed 310
Helix 22	22	B	134	138	Right-handed 310
Helix 23	23	B	139	144	Right-handed alpha
Helix 24	24	B	148	152	Right-handed 310
Helix 25	25	B	170	174	Right-handed 310
Helix 26	26	B	203	207	Right-handed 310
Helix 27	27	B	318	322	Right-handed 310
Helix 28	28	B	330	336	Right-handed 310
Helix 29	29	B	348	353	Right-handed alpha
Helix 30	30	B	364	374	Right-handed 310
Helix 31	31	B	393	397	Right-handed 310
Helix 32	32	B	407	410	Right-handed 310
Helix 33	33	B	447	451	Right-handed 310
Helix 34	34	B	452	457	Right-handed alpha
Helix 35	35	B	475	479	Right-handed 310
Helix 36	36	B	495	499	Right-handed 310
Helix 37	37	B	551	555	Right-handed 310
Helix 38	38	B	577	581	Right-handed 310

There are 27 sheets in PDB entry 3NJP. 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, Y, Z, AA,

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	7	first strand
Strand 2	A	36	37	parallel
Strand 3	A	60	61	parallel
Strand 4	A	82	83	parallel

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There are 3 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	16	17	first strand
Strand 2	C	28	33	parallel
Strand 3	C	19	23	anti-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	41	44	first strand
Strand 2	A	65	68	parallel
Strand 3	A	93	98	parallel
Strand 4	A	123	127	parallel
Strand 5	A	153	154	parallel

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There are 2 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	230	232	first strand
Strand 2	A	235	237	anti-parallel

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There are 2 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	244	247	first strand
Strand 2	A	252	255	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	A	261	263	first strand
Strand 2	A	266	268	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	A	283	284	first strand
Strand 2	A	276	277	anti-parallel
Strand 3	A	299	302	parallel
Strand 4	A	293	296	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	313	314	first strand
Strand 2	A	340	342	parallel
Strand 3	A	376	377	parallel
Strand 4	A	401	402	parallel
Strand 5	A	431	432	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	345	347	first strand
Strand 2	A	381	383	parallel
Strand 3	A	412	417	parallel
Strand 4	A	436	440	parallel
Strand 5	A	464	465	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	A	505	507	first strand
Strand 2	A	510	512	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	524	527	first strand
Strand 2	A	530	533	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	561	563	first strand
Strand 2	A	566	568	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	573	576	first strand
Strand 2	A	582	587	anti-parallel
Strand 3	A	593	595	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	6	7	first strand
Strand 2	B	36	37	parallel
Strand 3	B	60	61	parallel
Strand 4	B	82	83	parallel
Strand 5	B	118	119	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	B	16	17	first strand
Strand 2	D	29	33	parallel
Strand 3	D	19	22	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	41	44	first strand
Strand 2	B	65	68	parallel
Strand 3	B	93	98	parallel
Strand 4	B	123	127	parallel
Strand 5	B	153	154	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	244	247	first strand
Strand 2	B	252	255	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	B	261	263	first strand
Strand 2	B	266	268	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	283	284	first strand
Strand 2	B	276	277	anti-parallel
Strand 3	B	300	304	parallel
Strand 4	B	291	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	313	314	first strand
Strand 2	B	340	342	parallel
Strand 3	B	376	377	parallel
Strand 4	B	401	402	parallel
Strand 5	B	431	432	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	345	347	first strand
Strand 2	B	381	383	parallel
Strand 3	B	412	417	parallel
Strand 4	B	436	440	parallel
Strand 5	B	464	465	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	B	505	506	first strand
Strand 2	B	511	512	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	524	527	first strand
Strand 2	B	530	533	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	561	563	first strand
Strand 2	B	566	568	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	585	587	first strand
Strand 2	B	593	595	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	37	38	first strand
Strand 2	C	44	45	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	37	38	first strand
Strand 2	D	44	45	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: 3NJP

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