Analysis of interatomic Contacts of Structural Units in PDB entry:
5NAF

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 5NAF entry

There are 6 chains in PDB entry 5NAF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 155	ARG 513
B	VAL 155	LYS 514
C	PRO 158	ARG 513
D	SER 159	LEU 512
E	HIS 297	LYS 307
F	GLU 298	LYS 307

There are 5 helices in PDB entry 5NAF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	158	160	Right-handed 310
Helix 2	AA2	B	158	160	Right-handed 310
Helix 3	AA3	E	297	301	Right-handed 310
Helix 4	AA4	E	302	306	Right-handed 310
Helix 5	AA5	F	302	306	Right-handed 310

There are 33 sheets in PDB entry 5NAF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	162	165	first strand
Strand 2	A	507	511	anti-parallel
Strand 3	A	497	502	anti-parallel
Strand 4	A	486	491	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	172	177	first strand
Strand 2	A	183	188	anti-parallel
Strand 3	A	193	197	anti-parallel
Strand 4	A	207	211	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	228	233	first strand
Strand 2	A	239	244	anti-parallel
Strand 3	A	248	253	anti-parallel
Strand 4	A	258	264	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	269	274	first strand
Strand 2	A	280	285	anti-parallel
Strand 3	A	290	294	anti-parallel
Strand 4	A	300	304	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	311	316	first strand
Strand 2	A	321	326	anti-parallel
Strand 3	A	330	335	anti-parallel
Strand 4	A	343	346	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	352	357	first strand
Strand 2	A	364	368	anti-parallel
Strand 3	A	373	376	anti-parallel
Strand 4	A	385	387	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	394	399	first strand
Strand 2	A	414	419	anti-parallel
Strand 3	A	424	428	anti-parallel
Strand 4	A	433	438	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	445	450	first strand
Strand 2	A	456	461	anti-parallel
Strand 3	A	465	470	anti-parallel
Strand 4	A	476	481	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	162	165	first strand
Strand 2	B	507	511	anti-parallel
Strand 3	B	497	502	anti-parallel
Strand 4	B	486	491	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	172	177	first strand
Strand 2	B	183	188	anti-parallel
Strand 3	B	193	197	anti-parallel
Strand 4	B	207	211	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	228	233	first strand
Strand 2	B	239	244	anti-parallel
Strand 3	B	248	253	anti-parallel
Strand 4	B	258	264	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	269	274	first strand
Strand 2	B	280	285	anti-parallel
Strand 3	B	290	294	anti-parallel
Strand 4	B	300	304	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	311	316	first strand
Strand 2	B	321	326	anti-parallel
Strand 3	B	330	335	anti-parallel
Strand 4	B	343	346	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	352	357	first strand
Strand 2	B	364	368	anti-parallel
Strand 3	B	373	376	anti-parallel
Strand 4	B	385	387	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	394	399	first strand
Strand 2	B	415	419	anti-parallel
Strand 3	B	424	428	anti-parallel
Strand 4	B	433	438	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	445	450	first strand
Strand 2	B	456	461	anti-parallel
Strand 3	B	465	470	anti-parallel
Strand 4	B	478	481	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	162	165	first strand
Strand 2	C	507	511	anti-parallel
Strand 3	C	497	502	anti-parallel
Strand 4	C	486	491	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	172	177	first strand
Strand 2	C	183	188	anti-parallel
Strand 3	C	192	197	anti-parallel
Strand 4	C	208	212	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	214	215	first strand
Strand 2	C	222	223	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	228	233	first strand
Strand 2	C	239	244	anti-parallel
Strand 3	C	248	253	anti-parallel
Strand 4	C	258	263	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	269	274	first strand
Strand 2	C	280	285	anti-parallel
Strand 3	C	290	294	anti-parallel
Strand 4	C	300	304	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	311	316	first strand
Strand 2	C	321	326	anti-parallel
Strand 3	C	330	335	anti-parallel
Strand 4	C	343	346	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	352	357	first strand
Strand 2	C	363	368	anti-parallel
Strand 3	C	373	377	anti-parallel
Strand 4	C	385	387	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	394	399	first strand
Strand 2	C	414	419	anti-parallel
Strand 3	C	424	428	anti-parallel
Strand 4	C	433	438	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	445	450	first strand
Strand 2	C	456	461	anti-parallel
Strand 3	C	465	470	anti-parallel
Strand 4	C	476	481	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	162	165	first strand
Strand 2	D	507	511	anti-parallel
Strand 3	D	497	502	anti-parallel
Strand 4	D	486	491	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	172	177	first strand
Strand 2	D	183	188	anti-parallel
Strand 3	D	192	197	anti-parallel
Strand 4	D	208	212	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	228	233	first strand
Strand 2	D	239	244	anti-parallel
Strand 3	D	249	253	anti-parallel
Strand 4	D	258	261	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	269	274	first strand
Strand 2	D	280	285	anti-parallel
Strand 3	D	290	294	anti-parallel
Strand 4	D	300	304	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	311	316	first strand
Strand 2	D	321	326	anti-parallel
Strand 3	D	331	335	anti-parallel
Strand 4	D	343	345	anti-parallel

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There are 4 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	352	357	first strand
Strand 2	D	363	368	anti-parallel
Strand 3	D	373	377	anti-parallel
Strand 4	D	385	387	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	394	399	first strand
Strand 2	D	414	419	anti-parallel
Strand 3	D	424	428	anti-parallel
Strand 4	D	433	438	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	445	450	first strand
Strand 2	D	456	461	anti-parallel
Strand 3	D	465	470	anti-parallel
Strand 4	D	476	481	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: 5NAF

Analysis of interatomic Contacts of Structural Units in PDB entry:
5NAF