Analysis of interatomic Contacts of Structural Units in PDB entry:
9DNI

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 9DNI entry

There are 3 chains in PDB entry 9DNI (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 1	LYS 130
B	SER 1	LYS 130
C	GLY 5	GLN 465

There are 48 helices in PDB entry 9DNI. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1	16	Right-handed alpha
Helix 2	AA2	A	17	34	Right-handed alpha
Helix 3	AA3	A	36	52	Right-handed alpha
Helix 4	AA4	A	53	64	Right-handed alpha
Helix 5	AA5	A	66	87	Right-handed alpha
Helix 6	AA6	A	89	110	Right-handed alpha
Helix 7	AA7	A	111	130	Right-handed alpha
Helix 8	AA8	B	2	15	Right-handed alpha
Helix 9	AA9	B	17	34	Right-handed alpha
Helix 10	AB1	B	36	52	Right-handed alpha
Helix 11	AB2	B	53	64	Right-handed alpha
Helix 12	AB3	B	66	87	Right-handed alpha
Helix 13	AB4	B	89	110	Right-handed alpha
Helix 14	AB5	B	111	130	Right-handed alpha
Helix 15	AB6	C	19	26	Right-handed 310
Helix 16	AB7	C	42	46	Right-handed 310
Helix 17	AB8	C	71	76	Right-handed alpha
Helix 18	AB9	C	87	91	Right-handed 310
Helix 19	AC1	C	132	136	Right-handed 310
Helix 20	AC2	C	193	197	Right-handed 310
Helix 21	AC3	C	221	225	Right-handed 310
Helix 22	AC4	C	255	264	Right-handed alpha
Helix 23	AC5	C	315	318	Right-handed 310
Helix 24	AC6	C	323	330	Right-handed alpha
Helix 25	AC7	C	351	356	Right-handed alpha
Helix 26	AC8	C	435	447	Right-handed alpha
Helix 27	AC9	C	448	451	Right-handed 310
Helix 28	AD1	C	453	457	Right-handed 310
Helix 29	AD2	C	496	498	Right-handed 310
Helix 30	AD3	C	638	644	Right-handed alpha
Helix 31	AD4	C	863	869	Right-handed alpha
Helix 32	AD5	D	16	26	Right-handed 310
Helix 33	AD6	D	42	47	Right-handed alpha
Helix 34	AD7	D	87	91	Right-handed 310
Helix 35	AD8	D	132	136	Right-handed 310
Helix 36	AD9	D	193	200	Right-handed 310
Helix 37	AE1	D	221	223	Right-handed 310
Helix 38	AE2	D	255	265	Right-handed alpha
Helix 39	AE3	D	315	318	Right-handed 310
Helix 40	AE4	D	323	330	Right-handed alpha
Helix 41	AE5	D	351	356	Right-handed alpha
Helix 42	AE6	D	435	447	Right-handed alpha
Helix 43	AE7	D	448	452	Right-handed 310
Helix 44	AE8	D	453	457	Right-handed 310
Helix 45	AE9	D	496	498	Right-handed 310
Helix 46	AF1	D	573	577	Right-handed 310
Helix 47	AF2	D	639	644	Right-handed alpha
Helix 48	AF3	D	863	869	Right-handed alpha

There are 35 sheets in PDB entry 9DNI. 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, AD7, AD8,

There are 5 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	7	14	first strand
Strand 2	C	28	36	parallel
Strand 3	C	56	57	parallel
Strand 4	C	81	82	parallel
Strand 5	C	111	112	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	C	95	96	first strand
Strand 2	C	118	120	parallel
Strand 3	C	144	146	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	C	232	233	first strand
Strand 2	C	236	237	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	246	248	first strand
Strand 2	C	252	254	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	C	278	280	first strand
Strand 2	C	283	285	anti-parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	292	295	first strand
Strand 2	C	300	303	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	C	311	313	first strand
Strand 2	C	335	337	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	C	320	321	first strand
Strand 2	C	340	342	parallel
Strand 3	C	368	370	parallel
Strand 4	C	400	401	parallel

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There are 3 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	363	364	first strand
Strand 2	C	387	388	parallel
Strand 3	C	420	421	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	C	471	472	first strand
Strand 2	C	581	582	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	477	480	first strand
Strand 2	C	485	488	anti-parallel
Strand 3	C	550	552	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	C	532	533	first strand
Strand 2	C	500	509	anti-parallel
Strand 3	C	561	570	anti-parallel
Strand 4	C	586	589	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	598	607	first strand
Strand 2	C	610	618	anti-parallel
Strand 3	C	767	770	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	C	759	762	first strand
Strand 2	C	627	631	anti-parallel
Strand 3	C	781	786	anti-parallel
Strand 4	C	799	801	anti-parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	634	635	first strand
Strand 2	C	778	779	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	819	823	first strand
Strand 2	C	827	831	anti-parallel
Strand 3	C	872	875	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	857	862	first strand
Strand 2	C	842	851	anti-parallel
Strand 3	C	880	890	anti-parallel
Strand 4	C	901	905	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	7	9	first strand
Strand 2	D	28	30	parallel
Strand 3	D	56	57	parallel
Strand 4	D	81	82	parallel
Strand 5	D	111	112	parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	12	14	first strand
Strand 2	D	33	38	parallel
Strand 3	D	61	66	parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	118	120	first strand
Strand 2	D	144	146	parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	212	216	first strand
Strand 2	D	225	228	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	231	233	first strand
Strand 2	D	236	238	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	246	248	first strand
Strand 2	D	252	254	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	278	280	first strand
Strand 2	D	283	285	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	292	295	first strand
Strand 2	D	300	303	anti-parallel

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There are 2 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	311	313	first strand
Strand 2	D	335	337	parallel

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There are 5 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	320	321	first strand
Strand 2	D	341	342	parallel
Strand 3	D	368	371	parallel
Strand 4	D	398	403	parallel
Strand 5	D	425	426	parallel

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There are 3 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	363	364	first strand
Strand 2	D	387	388	parallel
Strand 3	D	420	421	parallel

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There are 5 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	471	472	first strand
Strand 2	D	581	589	parallel
Strand 3	D	561	570	anti-parallel
Strand 4	D	500	509	anti-parallel
Strand 5	D	532	533	anti-parallel

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There are 3 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	477	480	first strand
Strand 2	D	485	488	anti-parallel
Strand 3	D	550	552	anti-parallel

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There are 3 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	598	607	first strand
Strand 2	D	610	618	anti-parallel
Strand 3	D	767	770	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	759	762	first strand
Strand 2	D	627	634	anti-parallel
Strand 3	D	778	786	anti-parallel
Strand 4	D	799	804	anti-parallel

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There are 3 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	819	823	first strand
Strand 2	D	827	831	anti-parallel
Strand 3	D	872	874	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	857	862	first strand
Strand 2	D	842	851	anti-parallel
Strand 3	D	880	890	anti-parallel
Strand 4	D	893	897	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	857	862	first strand
Strand 2	D	842	851	anti-parallel
Strand 3	D	880	890	anti-parallel
Strand 4	D	901	905	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: 9DNI

Analysis of interatomic Contacts of Structural Units in PDB entry:
9DNI