Analysis of interatomic Contacts of Structural Units in PDB entry:
6NDP

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 6NDP entry

There are 2 chains in PDB entry 6NDP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	CYS 13	ARG 631
B	CYS 13	ASP 632

There are 40 helices in PDB entry 6NDP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	46	51	Right-handed alpha
Helix 2	AA2	A	54	59	Right-handed alpha
Helix 3	AA3	A	62	67	Right-handed alpha
Helix 4	AA4	A	128	141	Right-handed alpha
Helix 5	AA5	A	144	160	Right-handed alpha
Helix 6	AA6	A	196	200	Right-handed 310
Helix 7	AA7	A	201	211	Right-handed alpha
Helix 8	AA8	A	249	259	Right-handed alpha
Helix 9	AA9	A	290	337	Right-handed alpha
Helix 10	AB1	A	341	347	Right-handed alpha
Helix 11	AB2	A	348	355	Right-handed alpha
Helix 12	AB3	A	377	389	Right-handed alpha
Helix 13	AB4	A	393	400	Right-handed alpha
Helix 14	AB5	A	408	413	Right-handed alpha
Helix 15	AB6	A	419	424	Right-handed alpha
Helix 16	AB7	A	490	499	Right-handed alpha
Helix 17	AB8	A	500	525	Right-handed alpha
Helix 18	AB9	A	548	556	Right-handed alpha
Helix 19	AC1	A	558	563	Right-handed alpha
Helix 20	AC2	A	576	590	Right-handed alpha
Helix 21	AC3	B	46	52	Right-handed alpha
Helix 22	AC4	B	54	59	Right-handed alpha
Helix 23	AC5	B	62	66	Right-handed 310
Helix 24	AC6	B	132	142	Right-handed alpha
Helix 25	AC7	B	144	160	Right-handed alpha
Helix 26	AC8	B	196	200	Right-handed 310
Helix 27	AC9	B	201	211	Right-handed alpha
Helix 28	AD1	B	249	259	Right-handed alpha
Helix 29	AD2	B	290	337	Right-handed alpha
Helix 30	AD3	B	341	355	Right-handed alpha
Helix 31	AD4	B	377	389	Right-handed alpha
Helix 32	AD5	B	393	400	Right-handed alpha
Helix 33	AD6	B	408	413	Right-handed alpha
Helix 34	AD7	B	419	424	Right-handed alpha
Helix 35	AD8	B	490	499	Right-handed alpha
Helix 36	AD9	B	501	525	Right-handed alpha
Helix 37	AE1	B	548	556	Right-handed alpha
Helix 38	AE2	B	558	563	Right-handed alpha
Helix 39	AE3	B	566	571	Right-handed alpha
Helix 40	AE4	B	576	590	Right-handed alpha

There are 12 sheets in PDB entry 6NDP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 2 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	23	24	first strand
Strand 2	A	224	225	anti-parallel

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There are 5 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	40	43	first strand
Strand 2	A	29	33	anti-parallel
Strand 3	A	113	119	anti-parallel
Strand 4	A	102	108	anti-parallel
Strand 5	A	83	89	anti-parallel

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There are 5 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	177	183	first strand
Strand 2	A	164	169	anti-parallel
Strand 3	A	275	282	anti-parallel
Strand 4	A	264	270	anti-parallel
Strand 5	A	214	216	anti-parallel

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There are 5 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	369	373	first strand
Strand 2	A	360	365	anti-parallel
Strand 3	A	437	443	anti-parallel
Strand 4	A	425	429	anti-parallel
Strand 5	A	404	406	anti-parallel

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There are 2 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	448	452	first strand
Strand 2	A	478	482	anti-parallel

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There are 5 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	543	547	first strand
Strand 2	A	530	534	anti-parallel
Strand 3	A	625	629	anti-parallel
Strand 4	A	608	615	anti-parallel
Strand 5	A	593	598	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	23	24	first strand
Strand 2	B	224	225	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	40	43	first strand
Strand 2	B	29	33	anti-parallel
Strand 3	B	113	119	anti-parallel
Strand 4	B	102	108	anti-parallel
Strand 5	B	83	88	anti-parallel

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There are 6 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	194	195	first strand
Strand 2	B	176	183	anti-parallel
Strand 3	B	164	170	anti-parallel
Strand 4	B	275	283	anti-parallel
Strand 5	B	263	270	anti-parallel
Strand 6	B	214	216	anti-parallel

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There are 5 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	369	373	first strand
Strand 2	B	360	365	anti-parallel
Strand 3	B	437	443	anti-parallel
Strand 4	B	425	429	anti-parallel
Strand 5	B	404	406	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	448	451	first strand
Strand 2	B	479	482	anti-parallel

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There are 5 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	543	547	first strand
Strand 2	B	531	534	anti-parallel
Strand 3	B	625	630	anti-parallel
Strand 4	B	608	615	anti-parallel
Strand 5	B	593	598	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: 6NDP

Analysis of interatomic Contacts of Structural Units in PDB entry:
6NDP