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

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 6NDJ entry

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

Chain ID	Initial residue	Terminal residue
A	GLU 15	LYS 1086
B	GLU 15	ALA 1090

There are 47 helices in PDB entry 6NDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	28	44	Right-handed alpha
Helix 2	AA2	A	54	63	Right-handed alpha
Helix 3	AA3	A	76	85	Right-handed alpha
Helix 4	AA4	A	94	99	Right-handed alpha
Helix 5	AA5	A	102	108	Right-handed alpha
Helix 6	AA6	A	140	142	Right-handed 310
Helix 7	AA7	A	143	153	Right-handed alpha
Helix 8	AA8	A	165	174	Right-handed alpha
Helix 9	AA9	A	197	213	Right-handed alpha
Helix 10	AB1	A	221	231	Right-handed alpha
Helix 11	AB2	A	240	242	Right-handed 310
Helix 12	AB3	A	243	251	Right-handed alpha
Helix 13	AB4	A	284	295	Right-handed alpha
Helix 14	AB5	A	298	307	Right-handed alpha
Helix 15	AB6	A	316	324	Right-handed alpha
Helix 16	AB7	A	326	339	Right-handed alpha
Helix 17	AB8	A	347	365	Right-handed alpha
Helix 18	AB9	A	368	1028	Right-handed alpha
Helix 19	AC1	A	1030	1042	Right-handed alpha
Helix 20	AC2	A	1045	1049	Right-handed 310
Helix 21	AC3	A	1055	1059	Right-handed 310
Helix 22	AC4	A	1060	1073	Right-handed alpha
Helix 23	AC5	A	1073	1086	Right-handed alpha
Helix 24	AC6	B	28	44	Right-handed alpha
Helix 25	AC7	B	54	63	Right-handed alpha
Helix 26	AC8	B	76	85	Right-handed alpha
Helix 27	AC9	B	94	99	Right-handed alpha
Helix 28	AD1	B	100	101	Right-handed 310
Helix 29	AD2	B	102	108	Right-handed 310
Helix 30	AD3	B	140	142	Right-handed 310
Helix 31	AD4	B	143	153	Right-handed alpha
Helix 32	AD5	B	165	176	Right-handed alpha
Helix 33	AD6	B	197	213	Right-handed alpha
Helix 34	AD7	B	221	231	Right-handed alpha
Helix 35	AD8	B	240	242	Right-handed 310
Helix 36	AD9	B	243	251	Right-handed alpha
Helix 37	AE1	B	284	295	Right-handed alpha
Helix 38	AE2	B	298	309	Right-handed alpha
Helix 39	AE3	B	316	324	Right-handed alpha
Helix 40	AE4	B	326	339	Right-handed alpha
Helix 41	AE5	B	347	365	Right-handed alpha
Helix 42	AE6	B	368	1028	Right-handed alpha
Helix 43	AE7	B	1030	1041	Right-handed alpha
Helix 44	AE8	B	1045	1049	Right-handed 310
Helix 45	AE9	B	1055	1059	Right-handed 310
Helix 46	AF1	B	1060	1073	Right-handed alpha
Helix 47	AF2	B	1073	1087	Right-handed alpha

There are 11 sheets in PDB entry 6NDJ. 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 6 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	46	50	first strand
Strand 2	A	18	22	parallel
Strand 3	A	71	75	parallel
Strand 4	A	270	278	anti-parallel
Strand 5	A	117	123	anti-parallel
Strand 6	A	313	314	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	46	50	first strand
Strand 2	A	18	22	parallel
Strand 3	A	71	75	parallel
Strand 4	A	270	278	anti-parallel
Strand 5	A	340	341	parallel

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There are 2 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	110	111	first strand
Strand 2	A	114	115	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	157	159	first strand
Strand 2	A	234	239	parallel
Strand 3	A	126	130	anti-parallel
Strand 4	A	254	257	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	179	184	first strand
Strand 2	A	187	194	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	47	50	first strand
Strand 2	B	19	22	parallel
Strand 3	B	71	75	parallel
Strand 4	B	270	278	anti-parallel
Strand 5	B	118	123	anti-parallel
Strand 6	B	313	314	anti-parallel

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There are 5 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	47	50	first strand
Strand 2	B	19	22	parallel
Strand 3	B	71	75	parallel
Strand 4	B	270	278	anti-parallel
Strand 5	B	340	341	parallel

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There are 2 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	110	111	first strand
Strand 2	B	114	115	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	157	159	first strand
Strand 2	B	234	239	parallel
Strand 3	B	126	130	anti-parallel
Strand 4	B	254	257	anti-parallel

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There are 2 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	179	184	first strand
Strand 2	B	187	194	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	261	262	first strand
Strand 2	B	265	266	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: 6NDJ

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