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

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 7YFD entry

There are 6 chains in PDB entry 7YFD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 2	VAL 361
B	SER 2	SER 343
C	ASP 1	LEU 247
R	LEU 12	PHE 373
G	ALA 7	ARG 62
N	GLN 1	SER 128

There are 27 helices in PDB entry 7YFD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	33	Right-handed alpha
Helix 2	AA2	A	45	57	Right-handed alpha
Helix 3	AA3	A	232	246	Right-handed alpha
Helix 4	AA4	A	260	270	Right-handed alpha
Helix 5	AA5	A	274	278	Right-handed 310
Helix 6	AA6	A	279	283	Right-handed 310
Helix 7	AA7	A	298	319	Right-handed alpha
Helix 8	AA8	A	338	358	Right-handed alpha
Helix 9	AA9	B	3	25	Right-handed alpha
Helix 10	AB1	B	29	34	Right-handed alpha
Helix 11	AB2	C	28	32	Right-handed 310
Helix 12	AB3	R	13	44	Right-handed alpha
Helix 13	AB4	R	48	77	Right-handed alpha
Helix 14	AB5	R	84	118	Right-handed alpha
Helix 15	AB6	R	119	124	Right-handed alpha
Helix 16	AB7	R	129	158	Right-handed alpha
Helix 17	AB8	R	167	170	Right-handed 310
Helix 18	AB9	R	171	204	Right-handed alpha
Helix 19	AC1	R	299	329	Right-handed alpha
Helix 20	AC2	R	338	358	Right-handed alpha
Helix 21	AC3	R	362	373	Right-handed alpha
Helix 22	AC4	G	8	23	Right-handed alpha
Helix 23	AC5	G	29	42	Right-handed alpha
Helix 24	AC6	G	44	48	Right-handed 310
Helix 25	AC7	G	55	59	Right-handed 310
Helix 26	AC8	N	28	32	Right-handed 310
Helix 27	AC9	N	87	91	Right-handed 310

There are 15 sheets in PDB entry 7YFD. 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,

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	184	191	first strand
Strand 2	A	194	201	anti-parallel
Strand 3	A	34	39	parallel
Strand 4	A	220	226	parallel
Strand 5	A	253	259	parallel
Strand 6	A	326	330	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	45	51	first strand
Strand 2	B	336	341	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	175	180	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	187	192	first strand
Strand 2	B	198	203	anti-parallel
Strand 3	B	208	212	anti-parallel
Strand 4	B	218	222	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	249	254	anti-parallel
Strand 4	B	259	265	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	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	304	307	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	3	7	first strand
Strand 2	C	17	25	anti-parallel
Strand 3	C	78	84	anti-parallel
Strand 4	C	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	C	11	12	first strand
Strand 2	C	115	119	parallel
Strand 3	C	92	99	anti-parallel
Strand 4	C	33	39	anti-parallel
Strand 5	C	45	51	anti-parallel
Strand 6	C	58	60	anti-parallel

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There are 6 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	148	first strand
Strand 2	C	243	246	parallel
Strand 3	C	225	231	anti-parallel
Strand 4	C	174	179	anti-parallel
Strand 5	C	186	190	anti-parallel
Strand 6	C	194	195	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	146	148	first strand
Strand 2	C	243	246	parallel
Strand 3	C	225	231	anti-parallel
Strand 4	C	238	239	anti-parallel

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There are 3 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	155	160	first strand
Strand 2	C	211	216	anti-parallel
Strand 3	C	203	208	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	N	3	7	first strand
Strand 2	N	17	25	anti-parallel
Strand 3	N	78	84	anti-parallel
Strand 4	N	68	73	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	11	12	first strand
Strand 2	N	122	126	parallel
Strand 3	N	92	98	anti-parallel
Strand 4	N	34	39	anti-parallel
Strand 5	N	45	51	anti-parallel
Strand 6	N	58	60	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: 7YFD

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