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

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 8SOD entry

There are 6 chains in PDB entry 8SOD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
E	SER 2	ASN 340
C	SER 2	ASN 340
A	LEU 37	ARG 1076
B	THR 9	SER 873
F	ASN 4	PHE 67
D	ASN 4	PHE 67

There are 71 helices in PDB entry 8SOD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	E	2	26	Right-handed alpha
Helix 2	AA2	E	29	34	Right-handed alpha
Helix 3	AA3	C	3	26	Right-handed alpha
Helix 4	AA4	C	29	36	Right-handed alpha
Helix 5	AA5	A	66	82	Right-handed alpha
Helix 6	AA6	A	84	91	Right-handed alpha
Helix 7	AA7	A	92	94	Right-handed 310
Helix 8	AA8	A	119	129	Right-handed alpha
Helix 9	AA9	A	144	159	Right-handed alpha
Helix 10	AB1	A	171	180	Right-handed alpha
Helix 11	AB2	A	180	190	Right-handed alpha
Helix 12	AB3	A	192	199	Right-handed alpha
Helix 13	AB4	A	208	213	Right-handed alpha
Helix 14	AB5	A	240	252	Right-handed alpha
Helix 15	AB6	A	255	260	Right-handed alpha
Helix 16	AB7	A	290	300	Right-handed alpha
Helix 17	AB8	A	312	317	Right-handed 310
Helix 18	AB9	A	345	349	Right-handed 310
Helix 19	AC1	A	499	503	Right-handed 310
Helix 20	AC2	A	537	542	Right-handed alpha
Helix 21	AC3	A	550	560	Right-handed alpha
Helix 22	AC4	A	568	578	Right-handed alpha
Helix 23	AC5	A	585	587	Right-handed 310
Helix 24	AC6	A	588	593	Right-handed alpha
Helix 25	AC7	A	601	611	Right-handed alpha
Helix 26	AC8	A	626	630	Right-handed 310
Helix 27	AC9	A	639	649	Right-handed alpha
Helix 28	AD1	A	652	666	Right-handed alpha
Helix 29	AD2	A	675	686	Right-handed alpha
Helix 30	AD3	A	689	706	Right-handed alpha
Helix 31	AD4	A	709	722	Right-handed alpha
Helix 32	AD5	A	725	750	Right-handed alpha
Helix 33	AD6	A	761	777	Right-handed alpha
Helix 34	AD7	A	797	801	Right-handed 310
Helix 35	AD8	A	839	858	Right-handed alpha
Helix 36	AD9	A	887	893	Right-handed alpha
Helix 37	AE1	A	906	915	Right-handed alpha
Helix 38	AE2	A	917	943	Right-handed alpha
Helix 39	AE3	A	988	995	Right-handed alpha
Helix 40	AE4	A	1004	1022	Right-handed alpha
Helix 41	AE5	A	1023	1036	Right-handed alpha
Helix 42	AE6	A	1049	1056	Right-handed alpha
Helix 43	AE7	A	1062	1076	Right-handed alpha
Helix 44	AE8	B	10	21	Right-handed alpha
Helix 45	AE9	B	39	51	Right-handed alpha
Helix 46	AF1	B	52	73	Right-handed alpha
Helix 47	AF2	B	74	76	Right-handed 310
Helix 48	AF3	B	77	92	Right-handed alpha
Helix 49	AF4	B	100	110	Right-handed alpha
Helix 50	AF5	B	118	136	Right-handed alpha
Helix 51	AF6	B	138	149	Right-handed alpha
Helix 52	AF7	B	172	184	Right-handed alpha
Helix 53	AF8	B	188	205	Right-handed alpha
Helix 54	AF9	B	206	209	Right-handed 310
Helix 55	AG1	B	210	220	Right-handed alpha
Helix 56	AG2	B	222	240	Right-handed alpha
Helix 57	AG3	B	245	265	Right-handed alpha
Helix 58	AG4	B	298	307	Right-handed alpha
Helix 59	AG5	B	524	543	Right-handed alpha
Helix 60	AG6	B	605	611	Right-handed alpha
Helix 61	AG7	B	613	619	Right-handed alpha
Helix 62	AG8	B	650	663	Right-handed alpha
Helix 63	AG9	B	696	705	Right-handed alpha
Helix 64	AH1	B	707	713	Right-handed alpha
Helix 65	AH2	B	819	821	Right-handed 310
Helix 66	AH3	F	5	24	Right-handed alpha
Helix 67	AH4	F	29	45	Right-handed alpha
Helix 68	AH5	F	55	59	Right-handed 310
Helix 69	AH6	D	5	24	Right-handed alpha
Helix 70	AH7	D	29	45	Right-handed alpha
Helix 71	AH8	D	55	59	Right-handed 310

There are 27 sheets in PDB entry 8SOD. 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,

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	E	46	51	first strand
Strand 2	E	336	340	anti-parallel
Strand 3	E	327	330	anti-parallel
Strand 4	E	317	320	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	E	58	63	first strand
Strand 2	E	69	74	anti-parallel
Strand 3	E	78	83	anti-parallel
Strand 4	E	89	94	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	100	105	first strand
Strand 2	E	111	116	anti-parallel
Strand 3	E	120	125	anti-parallel
Strand 4	E	134	140	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	E	146	151	first strand
Strand 2	E	156	161	anti-parallel
Strand 3	E	166	170	anti-parallel
Strand 4	E	175	180	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	E	187	192	first strand
Strand 2	E	198	203	anti-parallel
Strand 3	E	207	212	anti-parallel
Strand 4	E	218	223	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	229	234	first strand
Strand 2	E	240	245	anti-parallel
Strand 3	E	250	254	anti-parallel
Strand 4	E	259	264	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	273	278	first strand
Strand 2	E	284	289	anti-parallel
Strand 3	E	294	298	anti-parallel
Strand 4	E	304	308	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	C	46	51	first strand
Strand 2	C	336	340	anti-parallel
Strand 3	C	327	330	anti-parallel
Strand 4	C	317	320	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	C	58	63	first strand
Strand 2	C	69	74	anti-parallel
Strand 3	C	78	83	anti-parallel
Strand 4	C	89	94	anti-parallel

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There are 4 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	100	105	first strand
Strand 2	C	111	116	anti-parallel
Strand 3	C	120	125	anti-parallel
Strand 4	C	134	140	anti-parallel

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There are 4 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	146	151	first strand
Strand 2	C	156	161	anti-parallel
Strand 3	C	166	170	anti-parallel
Strand 4	C	175	180	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	187	192	first strand
Strand 2	C	198	203	anti-parallel
Strand 3	C	207	212	anti-parallel
Strand 4	C	218	223	anti-parallel

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There are 4 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	229	234	first strand
Strand 2	C	240	245	anti-parallel
Strand 3	C	250	254	anti-parallel
Strand 4	C	259	264	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	273	278	first strand
Strand 2	C	284	289	anti-parallel
Strand 3	C	295	298	anti-parallel
Strand 4	C	304	307	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	A	41	43	first strand
Strand 2	A	56	58	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	A	105	108	first strand
Strand 2	A	96	102	anti-parallel
Strand 3	A	136	139	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	229	236	first strand
Strand 2	A	219	226	anti-parallel
Strand 3	A	304	306	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	A	272	273	first strand
Strand 2	A	280	281	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	407	419	first strand
Strand 2	A	360	369	anti-parallel
Strand 3	A	515	520	anti-parallel
Strand 4	A	478	483	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	393	398	first strand
Strand 2	A	381	388	anti-parallel
Strand 3	A	428	435	anti-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	A	462	463	first strand
Strand 2	A	485	486	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	A	783	784	first strand
Strand 2	A	792	793	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	811	814	first strand
Strand 2	A	829	834	anti-parallel
Strand 3	A	876	880	anti-parallel
Strand 4	A	869	871	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	A	952	953	first strand
Strand 2	A	961	962	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	288	292	first strand
Strand 2	B	160	166	parallel
Strand 3	B	514	521	parallel
Strand 4	B	551	558	parallel

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There are 5 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	683	685	first strand
Strand 2	B	672	678	anti-parallel
Strand 3	B	823	834	anti-parallel
Strand 4	B	812	816	anti-parallel
Strand 5	B	692	695	anti-parallel

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There are 8 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	683	685	first strand
Strand 2	B	672	678	anti-parallel
Strand 3	B	823	834	anti-parallel
Strand 4	B	802	805	anti-parallel
Strand 5	B	724	732	anti-parallel
Strand 6	B	740	755	anti-parallel
Strand 7	B	770	776	anti-parallel
Strand 8	B	793	799	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: 8SOD

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