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

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 5NGD entry

There are 4 chains in PDB entry 5NGD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 29	PRO 436
B	ALA 29	GLN 435
C	ALA 29	GLN 435
D	GLY 28	ILE 124

There are 64 helices in PDB entry 5NGD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	47	50	Right-handed 310
Helix 2	AA2	A	51	63	Right-handed alpha
Helix 3	AA3	A	65	81	Right-handed alpha
Helix 4	AA4	A	92	107	Right-handed alpha
Helix 5	AA5	A	115	132	Right-handed alpha
Helix 6	AA6	A	157	159	Right-handed 310
Helix 7	AA7	A	215	217	Right-handed 310
Helix 8	AA8	A	218	242	Right-handed alpha
Helix 9	AA9	A	260	272	Right-handed alpha
Helix 10	AB1	A	297	311	Right-handed alpha
Helix 11	AB2	A	329	356	Right-handed alpha
Helix 12	AB3	A	356	362	Right-handed alpha
Helix 13	AB4	A	383	398	Right-handed alpha
Helix 14	AB5	A	403	414	Right-handed alpha
Helix 15	AB6	A	416	424	Right-handed alpha
Helix 16	AB7	A	427	435	Right-handed alpha
Helix 17	AB8	B	47	50	Right-handed 310
Helix 18	AB9	B	51	63	Right-handed alpha
Helix 19	AC1	B	65	81	Right-handed alpha
Helix 20	AC2	B	92	107	Right-handed alpha
Helix 21	AC3	B	115	132	Right-handed alpha
Helix 22	AC4	B	157	159	Right-handed 310
Helix 23	AC5	B	215	217	Right-handed 310
Helix 24	AC6	B	218	242	Right-handed alpha
Helix 25	AC7	B	260	272	Right-handed alpha
Helix 26	AC8	B	297	311	Right-handed alpha
Helix 27	AC9	B	329	356	Right-handed alpha
Helix 28	AD1	B	356	362	Right-handed alpha
Helix 29	AD2	B	383	398	Right-handed alpha
Helix 30	AD3	B	403	414	Right-handed alpha
Helix 31	AD4	B	416	424	Right-handed alpha
Helix 32	AD5	B	427	435	Right-handed alpha
Helix 33	AD6	C	47	50	Right-handed 310
Helix 34	AD7	C	51	63	Right-handed alpha
Helix 35	AD8	C	65	81	Right-handed alpha
Helix 36	AD9	C	92	107	Right-handed alpha
Helix 37	AE1	C	115	132	Right-handed alpha
Helix 38	AE2	C	157	159	Right-handed 310
Helix 39	AE3	C	215	217	Right-handed 310
Helix 40	AE4	C	218	242	Right-handed alpha
Helix 41	AE5	C	260	272	Right-handed alpha
Helix 42	AE6	C	297	311	Right-handed alpha
Helix 43	AE7	C	329	356	Right-handed alpha
Helix 44	AE8	C	356	362	Right-handed alpha
Helix 45	AE9	C	383	398	Right-handed alpha
Helix 46	AF1	C	403	414	Right-handed alpha
Helix 47	AF2	C	416	424	Right-handed alpha
Helix 48	AF3	C	427	435	Right-handed alpha
Helix 49	AF4	D	47	50	Right-handed 310
Helix 50	AF5	D	51	63	Right-handed alpha
Helix 51	AF6	D	65	81	Right-handed alpha
Helix 52	AF7	D	92	107	Right-handed alpha
Helix 53	AF8	D	115	132	Right-handed alpha
Helix 54	AF9	D	157	159	Right-handed 310
Helix 55	AG1	D	215	217	Right-handed 310
Helix 56	AG2	D	218	242	Right-handed alpha
Helix 57	AG3	D	260	272	Right-handed alpha
Helix 58	AG4	D	297	311	Right-handed alpha
Helix 59	AG5	D	329	356	Right-handed alpha
Helix 60	AG6	D	356	362	Right-handed alpha
Helix 61	AG7	D	383	398	Right-handed alpha
Helix 62	AG8	D	403	414	Right-handed alpha
Helix 63	AG9	D	416	424	Right-handed alpha
Helix 64	AH1	D	427	435	Right-handed alpha

There are 16 sheets in PDB entry 5NGD. 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,

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	85	87	first strand
Strand 2	A	373	375	anti-parallel

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There are 3 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	148	156	first strand
Strand 2	A	133	142	anti-parallel
Strand 3	A	198	202	anti-parallel

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There are 3 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	161	166	first strand
Strand 2	A	172	180	anti-parallel
Strand 3	A	187	194	anti-parallel

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There are 3 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	284	287	first strand
Strand 2	A	244	248	anti-parallel
Strand 3	B	277	280	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	B	85	87	first strand
Strand 2	B	373	375	anti-parallel

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There are 3 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	148	156	first strand
Strand 2	B	133	142	anti-parallel
Strand 3	B	198	202	anti-parallel

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There are 3 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	161	166	first strand
Strand 2	B	172	180	anti-parallel
Strand 3	B	187	194	anti-parallel

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There are 3 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	284	287	first strand
Strand 2	B	244	248	anti-parallel
Strand 3	C	277	280	parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	85	87	first strand
Strand 2	C	373	375	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	148	156	first strand
Strand 2	C	133	142	anti-parallel
Strand 3	C	198	202	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	161	166	first strand
Strand 2	C	172	180	anti-parallel
Strand 3	C	187	194	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	284	287	first strand
Strand 2	C	244	248	anti-parallel
Strand 3	D	277	280	parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	85	87	first strand
Strand 2	D	373	375	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	148	156	first strand
Strand 2	D	133	142	anti-parallel
Strand 3	D	198	202	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	161	166	first strand
Strand 2	D	172	180	anti-parallel
Strand 3	D	187	194	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	244	247	first strand
Strand 2	D	284	287	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: 5NGD

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