Analysis of interatomic Contacts of Structural Units in PDB entry:
7YDJ

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 7YDJ entry

There are 5 chains in PDB entry 7YDJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 12	LEU 366
B	GLU 3	ASN 340
E	VAL 2	LEU 235
G	THR 6	ARG 62
R	SER 531	VAL 804

There are 31 helices in PDB entry 7YDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	15	38	Right-handed alpha
Helix 2	AA2	A	49	65	Right-handed alpha
Helix 3	AA3	A	230	235	Right-handed alpha
Helix 4	AA4	A	236	238	Right-handed 310
Helix 5	AA5	A	255	268	Right-handed alpha
Helix 6	AA6	A	269	273	Right-handed 310
Helix 7	AA7	A	283	293	Right-handed alpha
Helix 8	AA8	A	309	311	Right-handed 310
Helix 9	AA9	A	312	323	Right-handed alpha
Helix 10	AB1	A	340	364	Right-handed alpha
Helix 11	AB2	B	4	25	Right-handed alpha
Helix 12	AB3	B	29	34	Right-handed alpha
Helix 13	AB4	B	35	37	Right-handed 310
Helix 14	AB5	E	28	32	Right-handed 310
Helix 15	AB6	E	53	56	Right-handed 310
Helix 16	AB7	G	7	23	Right-handed alpha
Helix 17	AB8	G	29	44	Right-handed alpha
Helix 18	AB9	G	55	59	Right-handed 310
Helix 19	AC1	R	532	537	Right-handed 310
Helix 20	AC2	R	544	572	Right-handed alpha
Helix 21	AC3	R	577	600	Right-handed alpha
Helix 22	AC4	R	609	642	Right-handed alpha
Helix 23	AC5	R	651	674	Right-handed alpha
Helix 24	AC6	R	675	678	Right-handed 310
Helix 25	AC7	R	688	692	Right-handed 310
Helix 26	AC8	R	693	726	Right-handed alpha
Helix 27	AC9	R	730	749	Right-handed alpha
Helix 28	AD1	R	754	759	Right-handed 310
Helix 29	AD2	R	764	776	Right-handed alpha
Helix 30	AD3	R	777	787	Right-handed alpha
Helix 31	AD4	R	790	804	Right-handed alpha

There are 12 sheets in PDB entry 7YDJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 6 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	210	213	first strand
Strand 2	A	218	221	anti-parallel
Strand 3	A	41	46	parallel
Strand 4	A	243	249	parallel
Strand 5	A	276	282	parallel
Strand 6	A	332	333	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	47	52	first strand
Strand 2	B	335	339	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	320	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	B	58	63	first strand
Strand 2	B	69	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	88	94	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	B	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	121	125	anti-parallel
Strand 4	B	134	139	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	146	153	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	165	170	anti-parallel
Strand 4	B	176	181	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	B	189	192	first strand
Strand 2	B	198	202	anti-parallel
Strand 3	B	207	212	anti-parallel
Strand 4	B	218	223	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	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	260	264	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	273	278	first strand
Strand 2	B	285	289	anti-parallel
Strand 3	B	294	297	anti-parallel
Strand 4	B	304	308	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	E	4	7	first strand
Strand 2	E	15	24	anti-parallel
Strand 3	E	78	86	anti-parallel
Strand 4	E	68	73	anti-parallel

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There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	12	first strand
Strand 2	E	115	119	parallel
Strand 3	E	92	99	anti-parallel
Strand 4	E	33	39	anti-parallel
Strand 5	E	45	51	anti-parallel
Strand 6	E	58	60	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	E	129	130	first strand
Strand 2	E	143	148	anti-parallel
Strand 3	E	199	204	anti-parallel
Strand 4	E	191	196	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	134	136	first strand
Strand 2	E	231	234	parallel
Strand 3	E	214	219	anti-parallel
Strand 4	E	162	167	anti-parallel
Strand 5	E	174	178	anti-parallel
Strand 6	E	182	183	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: 7YDJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
7YDJ