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

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 8CDE entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 34	PRO 716
B	PHE 34	TYR 358
C	ALA 23	ARG 229
D	VAL 21	PRO 245

There are 19 helices in PDB entry 8CDE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	44	48	Right-handed 310
Helix 2	AA2	A	77	86	Right-handed alpha
Helix 3	AA3	A	93	101	Right-handed alpha
Helix 4	AA4	A	110	115	Right-handed alpha
Helix 5	AA5	A	196	211	Right-handed alpha
Helix 6	AA6	A	232	234	Right-handed 310
Helix 7	AA7	A	324	328	Right-handed 310
Helix 8	AA8	A	364	374	Right-handed alpha
Helix 9	AA9	A	393	396	Right-handed 310
Helix 10	AB1	A	420	424	Right-handed 310
Helix 11	AB2	A	429	435	Right-handed alpha
Helix 12	AB3	A	455	459	Right-handed 310
Helix 13	AB4	A	599	608	Right-handed alpha
Helix 14	AB5	A	614	619	Right-handed alpha
Helix 15	AB6	A	620	624	Right-handed 310
Helix 16	AB7	A	679	683	Right-handed 310
Helix 17	AB8	C	200	205	Right-handed alpha
Helix 18	AB9	D	106	110	Right-handed 310
Helix 19	AC1	D	217	223	Right-handed 310

There are 32 sheets in PDB entry 8CDE. 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,

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	62	63	first strand
Strand 2	A	157	158	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	A	67	74	first strand
Strand 2	A	147	153	anti-parallel
Strand 3	A	139	143	anti-parallel
Strand 4	A	117	118	anti-parallel

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There are 7 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	165	169	first strand
Strand 2	A	238	245	anti-parallel
Strand 3	A	184	193	anti-parallel
Strand 4	B	311	315	anti-parallel
Strand 5	B	303	307	anti-parallel
Strand 6	B	292	296	anti-parallel
Strand 7	B	278	283	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	A	177	179	first strand
Strand 2	A	216	218	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	A	225	226	first strand
Strand 2	A	229	230	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	A	254	256	first strand
Strand 2	A	266	268	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	272	273	first strand
Strand 2	A	283	284	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	298	299	first strand
Strand 2	A	306	307	anti-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	A	335	339	first strand
Strand 2	A	346	350	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	A	354	356	first strand
Strand 2	A	361	363	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	A	387	391	first strand
Strand 2	A	466	476	anti-parallel
Strand 3	A	405	416	anti-parallel
Strand 4	A	427	428	anti-parallel

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There are 7 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	387	391	first strand
Strand 2	A	466	476	anti-parallel
Strand 3	A	381	383	anti-parallel
Strand 4	A	560	566	anti-parallel
Strand 5	A	629	638	anti-parallel
Strand 6	A	580	590	anti-parallel
Strand 7	A	597	598	anti-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	A	398	400	first strand
Strand 2	A	442	444	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	A	574	575	first strand
Strand 2	A	612	613	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	689	693	first strand
Strand 2	A	699	703	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	A	708	710	first strand
Strand 2	A	713	715	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	B	36	43	first strand
Strand 2	B	350	357	anti-parallel
Strand 3	B	339	345	anti-parallel
Strand 4	B	331	336	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	55	56	first strand
Strand 2	B	59	66	anti-parallel
Strand 3	B	76	82	anti-parallel
Strand 4	B	87	92	anti-parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	145	147	first strand
Strand 2	B	134	138	anti-parallel
Strand 3	B	114	120	anti-parallel
Strand 4	B	103	109	anti-parallel
Strand 5	B	164	166	parallel

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There are 8 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	169	171	first strand
Strand 2	B	174	182	anti-parallel
Strand 3	B	196	201	anti-parallel
Strand 4	B	210	215	anti-parallel
Strand 5	B	265	268	parallel
Strand 6	B	256	260	anti-parallel
Strand 7	B	237	239	anti-parallel
Strand 8	B	230	232	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	B	224	226	first strand
Strand 2	B	242	244	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	24	25	first strand
Strand 2	C	38	44	anti-parallel
Strand 3	C	88	93	anti-parallel
Strand 4	C	80	84	anti-parallel

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There are 5 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	29	32	first strand
Strand 2	C	120	124	parallel
Strand 3	C	102	110	anti-parallel
Strand 4	C	51	55	anti-parallel
Strand 5	C	63	66	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	29	32	first strand
Strand 2	C	120	124	parallel
Strand 3	C	102	110	anti-parallel
Strand 4	C	113	116	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	C	132	136	first strand
Strand 2	C	148	157	anti-parallel
Strand 3	C	191	199	anti-parallel
Strand 4	C	177	181	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	171	172	first strand
Strand 2	C	163	168	anti-parallel
Strand 3	C	209	215	anti-parallel
Strand 4	C	223	228	anti-parallel

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There are 4 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	22	27	first strand
Strand 2	D	36	44	anti-parallel
Strand 3	D	97	103	anti-parallel
Strand 4	D	87	92	anti-parallel

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There are 6 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	29	31	first strand
Strand 2	D	139	143	parallel
Strand 3	D	111	118	anti-parallel
Strand 4	D	54	59	anti-parallel
Strand 5	D	65	71	anti-parallel
Strand 6	D	77	79	anti-parallel

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There are 4 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	29	31	first strand
Strand 2	D	139	143	parallel
Strand 3	D	111	118	anti-parallel
Strand 4	D	132	135	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	168	177	first strand
Strand 2	D	208	216	anti-parallel
Strand 3	D	195	197	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	168	177	first strand
Strand 2	D	208	216	anti-parallel
Strand 3	D	201	202	anti-parallel

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There are 3 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	183	186	first strand
Strand 2	D	227	232	anti-parallel
Strand 3	D	237	242	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: 8CDE

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