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

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 1NEX entry

Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 8 chains in PDB entry 1NEX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 4	ARG 185
B	LEU 270	SER 744
C	SER 4	ARG 186
D	LEU 270	SER 744
E	LEU 3	LEU 3
E	PRO 5	PRO 6
F	LEU 2	LEU 3
F	PRO 5	GLY 9

There are 30 helices in PDB entry 1NEX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	20	24	Right-handed alpha
Helix 2	2	A	26	32	Right-handed alpha
Helix 3	3	A	83	97	Right-handed alpha
Helix 4	4	A	117	124	Right-handed alpha
Helix 5	5	A	127	142	Right-handed alpha
Helix 6	6	A	143	159	Right-handed alpha
Helix 7	7	A	162	171	Right-handed alpha
Helix 8	8	A	177	183	Right-handed alpha
Helix 9	9	B	273	278	Right-handed alpha
Helix 10	10	B	279	288	Right-handed alpha
Helix 11	11	B	291	299	Right-handed alpha
Helix 12	12	B	302	311	Right-handed alpha
Helix 13	13	B	313	323	Right-handed alpha
Helix 14	14	B	330	342	Right-handed alpha
Helix 15	15	B	346	367	Right-handed alpha
Helix 16	16	C	20	24	Right-handed alpha
Helix 17	17	C	26	33	Right-handed alpha
Helix 18	18	C	83	97	Right-handed alpha
Helix 19	19	C	118	124	Right-handed alpha
Helix 20	20	C	127	142	Right-handed alpha
Helix 21	21	C	143	159	Right-handed alpha
Helix 22	22	C	162	171	Right-handed alpha
Helix 23	23	C	177	183	Right-handed alpha
Helix 24	24	D	273	278	Right-handed alpha
Helix 25	25	D	279	288	Right-handed alpha
Helix 26	26	D	291	299	Right-handed alpha
Helix 27	27	D	302	310	Right-handed alpha
Helix 28	28	D	312	323	Right-handed alpha
Helix 29	29	D	330	342	Right-handed alpha
Helix 30	30	D	346	367	Right-handed alpha

There are 18 sheets in PDB entry 1NEX. 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,

There are 3 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	15	19	first strand
Strand 2	A	5	9	anti-parallel
Strand 3	A	76	78	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	B	373	378	first strand
Strand 2	B	736	742	anti-parallel
Strand 3	B	725	731	anti-parallel
Strand 4	B	715	722	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	385	391	first strand
Strand 2	B	394	399	anti-parallel
Strand 3	B	403	408	anti-parallel
Strand 4	B	413	419	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	425	431	first strand
Strand 2	B	435	440	anti-parallel
Strand 3	B	445	449	anti-parallel
Strand 4	B	454	459	anti-parallel
Strand 5	B	511	513	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	466	474	first strand
Strand 2	B	477	484	anti-parallel
Strand 3	B	488	493	anti-parallel
Strand 4	B	522	527	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	533	539	first strand
Strand 2	B	542	547	anti-parallel
Strand 3	B	552	556	anti-parallel
Strand 4	B	561	566	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	573	579	first strand
Strand 2	B	584	589	anti-parallel
Strand 3	B	594	598	anti-parallel
Strand 4	B	608	628	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	B	637	640	first strand
Strand 2	B	644	648	anti-parallel
Strand 3	B	653	658	anti-parallel
Strand 4	B	664	669	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	678	681	first strand
Strand 2	B	685	690	anti-parallel
Strand 3	B	693	698	anti-parallel

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There are 3 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	15	19	first strand
Strand 2	C	5	9	anti-parallel
Strand 3	C	76	78	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	373	378	first strand
Strand 2	D	736	742	anti-parallel
Strand 3	D	725	731	anti-parallel
Strand 4	D	715	722	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	385	391	first strand
Strand 2	D	394	399	anti-parallel
Strand 3	D	403	408	anti-parallel
Strand 4	D	413	419	anti-parallel

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There are 5 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	425	431	first strand
Strand 2	D	435	440	anti-parallel
Strand 3	D	445	449	anti-parallel
Strand 4	D	454	459	anti-parallel
Strand 5	D	511	513	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	466	474	first strand
Strand 2	D	477	484	anti-parallel
Strand 3	D	488	493	anti-parallel
Strand 4	D	522	527	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	D	533	539	first strand
Strand 2	D	542	547	anti-parallel
Strand 3	D	552	556	anti-parallel
Strand 4	D	561	566	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	D	573	579	first strand
Strand 2	D	584	589	anti-parallel
Strand 3	D	594	598	anti-parallel
Strand 4	D	608	628	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	D	635	640	first strand
Strand 2	D	644	649	anti-parallel
Strand 3	D	653	658	anti-parallel
Strand 4	D	664	669	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	676	681	first strand
Strand 2	D	685	690	anti-parallel
Strand 3	D	693	698	anti-parallel
Strand 4	D	704	706	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: 1NEX

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