Analysis of interatomic Contacts of Structural Units in PDB entry:
8D8N

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 8D8N entry

There are 3 chains in PDB entry 8D8N (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	MET 1	VAL 1693
C	A 13	A 47
D	U 19	A 39

There are 40 helices in PDB entry 8D8N. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	20	25	Right-handed alpha
Helix 2	AA2	B	27	31	Right-handed 310
Helix 3	AA3	B	54	73	Right-handed alpha
Helix 4	AA4	B	122	129	Right-handed alpha
Helix 5	AA5	B	163	168	Right-handed alpha
Helix 6	AA6	B	208	210	Right-handed 310
Helix 7	AA7	B	211	219	Right-handed alpha
Helix 8	AA8	B	259	282	Right-handed alpha
Helix 9	AA9	B	286	298	Right-handed alpha
Helix 10	AB1	B	303	309	Right-handed alpha
Helix 11	AB2	B	334	345	Right-handed alpha
Helix 12	AB3	B	349	370	Right-handed alpha
Helix 13	AB4	B	466	483	Right-handed alpha
Helix 14	AB5	B	498	505	Right-handed alpha
Helix 15	AB6	B	564	575	Right-handed alpha
Helix 16	AB7	B	589	593	Right-handed 310
Helix 17	AB8	B	612	619	Right-handed alpha
Helix 18	AB9	B	620	623	Right-handed 310
Helix 19	AC1	B	627	632	Right-handed alpha
Helix 20	AC2	B	633	637	Right-handed 310
Helix 21	AC3	B	653	659	Right-handed alpha
Helix 22	AC4	B	660	662	Right-handed 310
Helix 23	AC5	B	681	686	Right-handed alpha
Helix 24	AC6	B	718	735	Right-handed alpha
Helix 25	AC7	B	747	753	Right-handed alpha
Helix 26	AC8	B	827	843	Right-handed alpha
Helix 27	AC9	B	868	877	Right-handed alpha
Helix 28	AD1	B	910	914	Right-handed 310
Helix 29	AD2	B	976	980	Right-handed 310
Helix 30	AD3	B	999	1016	Right-handed alpha
Helix 31	AD4	B	1394	1399	Right-handed alpha
Helix 32	AD5	B	1400	1404	Right-handed 310
Helix 33	AD6	B	1414	1421	Right-handed alpha
Helix 34	AD7	B	1463	1468	Right-handed alpha
Helix 35	AD8	B	1489	1492	Right-handed 310
Helix 36	AD9	B	1493	1501	Right-handed alpha
Helix 37	AE1	B	1528	1540	Right-handed alpha
Helix 38	AE2	B	1586	1603	Right-handed alpha
Helix 39	AE3	B	1619	1629	Right-handed alpha
Helix 40	AE4	B	1673	1682	Right-handed alpha

There are 16 sheets in PDB entry 8D8N. 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 8 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	2	3	first strand
Strand 2	B	200	206	anti-parallel
Strand 3	B	146	153	anti-parallel
Strand 4	B	49	53	anti-parallel
Strand 5	B	37	41	anti-parallel
Strand 6	B	14	17	parallel
Strand 7	B	183	191	anti-parallel
Strand 8	B	169	176	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	2	3	first strand
Strand 2	B	200	206	anti-parallel
Strand 3	B	5	7	anti-parallel
Strand 4	B	233	234	anti-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	B	76	77	first strand
Strand 2	B	80	81	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	B	328	329	first strand
Strand 2	B	332	333	anti-parallel

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There are 4 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	507	508	first strand
Strand 2	B	556	560	anti-parallel
Strand 3	B	409	418	anti-parallel
Strand 4	B	551	553	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	B	507	508	first strand
Strand 2	B	556	560	anti-parallel
Strand 3	B	409	418	anti-parallel
Strand 4	B	598	606	anti-parallel
Strand 5	B	642	643	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	521	528	first strand
Strand 2	B	535	545	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	698	699	first strand
Strand 2	B	714	717	anti-parallel
Strand 3	B	767	769	anti-parallel
Strand 4	B	813	822	anti-parallel
Strand 5	B	762	763	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	698	699	first strand
Strand 2	B	714	717	anti-parallel
Strand 3	B	767	769	anti-parallel
Strand 4	B	813	822	anti-parallel
Strand 5	B	664	673	anti-parallel
Strand 6	B	858	863	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	782	785	first strand
Strand 2	B	799	802	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	920	921	first strand
Strand 2	B	1642	1643	parallel

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There are 2 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	924	927	first strand
Strand 2	B	1478	1481	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1429	1430	first strand
Strand 2	B	1517	1527	anti-parallel
Strand 3	B	950	960	anti-parallel
Strand 4	B	1559	1569	anti-parallel
Strand 5	B	1547	1548	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1435	1436	first strand
Strand 2	B	1517	1527	anti-parallel
Strand 3	B	950	960	anti-parallel
Strand 4	B	1559	1569	anti-parallel
Strand 5	B	1580	1581	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	B	985	986	first strand
Strand 2	B	1507	1510	parallel
Strand 3	B	1453	1455	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	B	1029	1030	first strand
Strand 2	B	1389	1390	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: 8D8N

Analysis of interatomic Contacts of Structural Units in PDB entry:
8D8N