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

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 8SDB entry

There are 4 chains in PDB entry 8SDB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 117	ALA 727
B	HIS 118	ALA 727
C	GLY 116	ALA 727
D	PRO 224	VAL 724

There are 89 helices in PDB entry 8SDB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	120	125	Right-handed alpha
Helix 2	AA2	A	156	158	Right-handed 310
Helix 3	AA3	A	230	238	Right-handed alpha
Helix 4	AA4	A	249	253	Right-handed 310
Helix 5	AA5	A	264	280	Right-handed alpha
Helix 6	AA6	A	294	298	Right-handed 310
Helix 7	AA7	A	310	313	Right-handed 310
Helix 8	AA8	A	314	328	Right-handed alpha
Helix 9	AA9	A	379	398	Right-handed alpha
Helix 10	AB1	A	406	412	Right-handed alpha
Helix 11	AB2	A	432	450	Right-handed alpha
Helix 12	AB3	A	482	495	Right-handed alpha
Helix 13	AB4	A	496	503	Right-handed 310
Helix 14	AB5	A	504	509	Right-handed alpha
Helix 15	AB6	A	509	515	Right-handed alpha
Helix 16	AB7	A	524	528	Right-handed 310
Helix 17	AB8	A	535	539	Right-handed 310
Helix 18	AB9	A	542	560	Right-handed alpha
Helix 19	AC1	A	569	573	Right-handed 310
Helix 20	AC2	A	585	590	Right-handed 310
Helix 21	AC3	A	594	613	Right-handed alpha
Helix 22	AC4	A	613	618	Right-handed alpha
Helix 23	AC5	A	622	624	Right-handed 310
Helix 24	AC6	A	683	687	Right-handed 310
Helix 25	AC7	B	120	124	Right-handed 310
Helix 26	AC8	B	230	237	Right-handed alpha
Helix 27	AC9	B	264	279	Right-handed alpha
Helix 28	AD1	B	294	298	Right-handed 310
Helix 29	AD2	B	310	313	Right-handed 310
Helix 30	AD3	B	314	327	Right-handed alpha
Helix 31	AD4	B	379	398	Right-handed alpha
Helix 32	AD5	B	406	411	Right-handed alpha
Helix 33	AD6	B	432	450	Right-handed alpha
Helix 34	AD7	B	469	473	Right-handed 310
Helix 35	AD8	B	482	495	Right-handed alpha
Helix 36	AD9	B	496	503	Right-handed 310
Helix 37	AE1	B	504	509	Right-handed alpha
Helix 38	AE2	B	509	514	Right-handed alpha
Helix 39	AE3	B	524	528	Right-handed 310
Helix 40	AE4	B	534	539	Right-handed alpha
Helix 41	AE5	B	542	560	Right-handed alpha
Helix 42	AE6	B	569	573	Right-handed 310
Helix 43	AE7	B	585	590	Right-handed 310
Helix 44	AE8	B	594	611	Right-handed alpha
Helix 45	AE9	B	613	618	Right-handed alpha
Helix 46	AF1	B	622	624	Right-handed 310
Helix 47	AF2	B	683	687	Right-handed 310
Helix 48	AF3	C	120	124	Right-handed 310
Helix 49	AF4	C	156	158	Right-handed 310
Helix 50	AF5	C	230	237	Right-handed alpha
Helix 51	AF6	C	249	253	Right-handed 310
Helix 52	AF7	C	264	280	Right-handed alpha
Helix 53	AF8	C	294	298	Right-handed 310
Helix 54	AF9	C	314	328	Right-handed alpha
Helix 55	AG1	C	343	347	Right-handed 310
Helix 56	AG2	C	379	398	Right-handed alpha
Helix 57	AG3	C	406	412	Right-handed alpha
Helix 58	AG4	C	424	428	Right-handed 310
Helix 59	AG5	C	432	450	Right-handed alpha
Helix 60	AG6	C	482	495	Right-handed alpha
Helix 61	AG7	C	496	503	Right-handed 310
Helix 62	AG8	C	504	509	Right-handed alpha
Helix 63	AG9	C	509	514	Right-handed alpha
Helix 64	AH1	C	524	528	Right-handed 310
Helix 65	AH2	C	535	539	Right-handed 310
Helix 66	AH3	C	542	560	Right-handed alpha
Helix 67	AH4	C	569	573	Right-handed 310
Helix 68	AH5	C	585	590	Right-handed 310
Helix 69	AH6	C	594	613	Right-handed alpha
Helix 70	AH7	C	614	617	Right-handed 310
Helix 71	AH8	C	622	624	Right-handed 310
Helix 72	AH9	C	683	687	Right-handed 310
Helix 73	AI1	D	234	238	Right-handed 310
Helix 74	AI2	D	264	277	Right-handed alpha
Helix 75	AI3	D	294	298	Right-handed 310
Helix 76	AI4	D	313	328	Right-handed alpha
Helix 77	AI5	D	379	398	Right-handed alpha
Helix 78	AI6	D	406	411	Right-handed alpha
Helix 79	AI7	D	418	422	Right-handed 310
Helix 80	AI8	D	432	450	Right-handed alpha
Helix 81	AI9	D	482	495	Right-handed alpha
Helix 82	AJ1	D	499	503	Right-handed 310
Helix 83	AJ2	D	504	514	Right-handed alpha
Helix 84	AJ3	D	515	517	Right-handed 310
Helix 85	AJ4	D	535	539	Right-handed 310
Helix 86	AJ5	D	542	560	Right-handed alpha
Helix 87	AJ6	D	602	611	Right-handed alpha
Helix 88	AJ7	D	614	619	Right-handed alpha
Helix 89	AJ8	D	622	626	Right-handed 310

There are 23 sheets in PDB entry 8SDB. 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,

There are 4 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	126	132	first strand
Strand 2	A	135	143	anti-parallel
Strand 3	A	174	180	anti-parallel
Strand 4	A	167	169	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	149	154	first strand
Strand 2	A	187	193	anti-parallel
Strand 3	A	199	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	149	154	first strand
Strand 2	A	187	193	anti-parallel
Strand 3	A	218	219	anti-parallel

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There are 9 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	244	248	first strand
Strand 2	A	283	286	parallel
Strand 3	A	331	336	parallel
Strand 4	A	401	404	parallel
Strand 5	A	454	457	parallel
Strand 6	A	479	481	parallel
Strand 7	A	519	521	parallel
Strand 8	A	563	567	parallel
Strand 9	A	244	248	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	290	291	first strand
Strand 2	A	304	308	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	A	626	628	first strand
Strand 2	A	638	644	anti-parallel
Strand 3	A	650	656	anti-parallel
Strand 4	A	719	726	anti-parallel
Strand 5	A	674	680	anti-parallel
Strand 6	A	697	698	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	A	662	665	first strand
Strand 2	A	713	715	anti-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	B	127	132	first strand
Strand 2	B	135	143	anti-parallel
Strand 3	B	174	180	anti-parallel
Strand 4	B	167	168	anti-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	B	149	154	first strand
Strand 2	B	187	193	anti-parallel
Strand 3	B	199	202	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	B	149	154	first strand
Strand 2	B	187	193	anti-parallel
Strand 3	B	218	219	anti-parallel

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There are 9 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	244	248	first strand
Strand 2	B	283	286	parallel
Strand 3	B	331	335	parallel
Strand 4	B	401	404	parallel
Strand 5	B	454	457	parallel
Strand 6	B	479	481	parallel
Strand 7	B	519	523	parallel
Strand 8	B	563	567	parallel
Strand 9	B	244	248	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	290	291	first strand
Strand 2	B	304	308	anti-parallel

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There are 6 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	626	630	first strand
Strand 2	B	638	644	anti-parallel
Strand 3	B	650	656	anti-parallel
Strand 4	B	719	726	anti-parallel
Strand 5	B	674	680	anti-parallel
Strand 6	B	697	698	anti-parallel

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There are 2 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	662	669	first strand
Strand 2	B	709	715	anti-parallel

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There are 7 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	126	132	first strand
Strand 2	C	135	143	anti-parallel
Strand 3	C	174	180	anti-parallel
Strand 4	C	165	169	anti-parallel
Strand 5	C	149	154	anti-parallel
Strand 6	C	187	193	anti-parallel
Strand 7	C	199	202	anti-parallel

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There are 7 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	126	132	first strand
Strand 2	C	135	143	anti-parallel
Strand 3	C	174	180	anti-parallel
Strand 4	C	165	169	anti-parallel
Strand 5	C	149	154	anti-parallel
Strand 6	C	187	193	anti-parallel
Strand 7	C	218	219	anti-parallel

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There are 9 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	244	248	first strand
Strand 2	C	283	286	parallel
Strand 3	C	331	335	parallel
Strand 4	C	401	404	parallel
Strand 5	C	454	457	parallel
Strand 6	C	479	481	parallel
Strand 7	C	519	523	parallel
Strand 8	C	563	567	parallel
Strand 9	C	244	248	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	290	291	first strand
Strand 2	C	304	308	anti-parallel

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There are 6 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	626	628	first strand
Strand 2	C	638	644	anti-parallel
Strand 3	C	650	656	anti-parallel
Strand 4	C	719	726	anti-parallel
Strand 5	C	674	680	anti-parallel
Strand 6	C	696	698	anti-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	C	662	669	first strand
Strand 2	C	709	715	anti-parallel

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There are 9 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	244	248	first strand
Strand 2	D	283	286	parallel
Strand 3	D	332	335	parallel
Strand 4	D	401	404	parallel
Strand 5	D	454	457	parallel
Strand 6	D	479	481	parallel
Strand 7	D	519	522	parallel
Strand 8	D	563	567	parallel
Strand 9	D	244	248	parallel

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There are 6 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	627	630	first strand
Strand 2	D	638	644	anti-parallel
Strand 3	D	650	656	anti-parallel
Strand 4	D	720	723	anti-parallel
Strand 5	D	674	680	anti-parallel
Strand 6	D	696	698	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	662	663	first strand
Strand 2	D	714	715	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: 8SDB

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