Analysis of interatomic Contacts of Structural Units in PDB entry:
7NDF

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 7NDF entry

There are 4 chains in PDB entry 7NDF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
C	GLN 1	SER 113
D	GLN 1	SER 113
A	GLY 340	PHE 580
B	GLY 340	GLN 579

There are 28 helices in PDB entry 7NDF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	86	90	Right-handed 310
Helix 2	AA2	D	61	64	Right-handed 310
Helix 3	AA3	D	86	90	Right-handed 310
Helix 4	AA4	A	381	388	Right-handed alpha
Helix 5	AA5	A	389	391	Right-handed 310
Helix 6	AA6	A	408	410	Right-handed 310
Helix 7	AA7	A	411	418	Right-handed alpha
Helix 8	AA8	A	432	438	Right-handed alpha
Helix 9	AA9	A	446	457	Right-handed alpha
Helix 10	AB1	A	459	464	Right-handed alpha
Helix 11	AB2	A	468	472	Right-handed 310
Helix 12	AB3	A	482	497	Right-handed alpha
Helix 13	AB4	A	513	528	Right-handed alpha
Helix 14	AB5	A	538	544	Right-handed alpha
Helix 15	AB6	A	561	569	Right-handed alpha
Helix 16	AB7	A	570	579	Right-handed alpha
Helix 17	AB8	B	381	389	Right-handed alpha
Helix 18	AB9	B	408	410	Right-handed 310
Helix 19	AC1	B	411	418	Right-handed alpha
Helix 20	AC2	B	433	438	Right-handed alpha
Helix 21	AC3	B	446	457	Right-handed alpha
Helix 22	AC4	B	459	465	Right-handed alpha
Helix 23	AC5	B	468	471	Right-handed 310
Helix 24	AC6	B	482	498	Right-handed alpha
Helix 25	AC7	B	513	528	Right-handed alpha
Helix 26	AC8	B	538	543	Right-handed 310
Helix 27	AC9	B	561	569	Right-handed alpha
Helix 28	AD1	B	570	576	Right-handed alpha

There are 11 sheets in PDB entry 7NDF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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	C	3	7	first strand
Strand 2	C	18	25	anti-parallel
Strand 3	C	77	82	anti-parallel
Strand 4	C	67	72	anti-parallel

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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	11	13	first strand
Strand 2	C	108	113	parallel
Strand 3	C	91	97	anti-parallel
Strand 4	C	34	39	anti-parallel
Strand 5	C	46	51	anti-parallel
Strand 6	C	57	59	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	C	11	13	first strand
Strand 2	C	108	113	parallel
Strand 3	C	91	97	anti-parallel
Strand 4	C	103	104	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	D	3	7	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	77	82	anti-parallel
Strand 4	D	67	72	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	13	first strand
Strand 2	D	108	113	parallel
Strand 3	D	91	97	anti-parallel
Strand 4	D	34	39	anti-parallel
Strand 5	D	46	51	anti-parallel
Strand 6	D	57	59	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	D	11	13	first strand
Strand 2	D	108	113	parallel
Strand 3	D	91	97	anti-parallel
Strand 4	D	103	104	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	359	366	first strand
Strand 2	A	342	349	anti-parallel
Strand 3	A	397	402	anti-parallel
Strand 4	A	405	406	anti-parallel

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There are 6 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	419	422	first strand
Strand 2	A	501	505	parallel
Strand 3	A	531	535	parallel
Strand 4	A	371	375	parallel
Strand 5	A	547	552	parallel
Strand 6	A	555	560	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	359	366	first strand
Strand 2	B	342	349	anti-parallel
Strand 3	B	397	402	anti-parallel
Strand 4	B	405	406	anti-parallel

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There are 6 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	419	422	first strand
Strand 2	B	501	505	parallel
Strand 3	B	531	535	parallel
Strand 4	B	371	375	parallel
Strand 5	B	547	552	parallel
Strand 6	B	555	560	anti-parallel

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There are 2 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	431	432	first strand
Strand 2	B	473	474	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: 7NDF

Analysis of interatomic Contacts of Structural Units in PDB entry:
7NDF