Analysis of interatomic Contacts of Structural Units in PDB entry:
9D4Z

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 9D4Z entry

There are 5 chains in PDB entry 9D4Z (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	ASP 38	ASN 340
G	ALA 34	SER 57
R	SER 42	SER 376
E	ASP 1	LEU 247
A	SER 6	VAL 366

There are 32 helices in PDB entry 9D4Z. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	256	258	Right-handed 310
Helix 2	AA2	G	35	44	Right-handed alpha
Helix 3	AA3	G	45	48	Right-handed 310
Helix 4	AA4	R	89	97	Right-handed alpha
Helix 5	AA5	R	98	130	Right-handed alpha
Helix 6	AA6	R	135	154	Right-handed alpha
Helix 7	AA7	R	154	164	Right-handed alpha
Helix 8	AA8	R	171	206	Right-handed alpha
Helix 9	AA9	R	206	214	Right-handed alpha
Helix 10	AB1	R	215	234	Right-handed alpha
Helix 11	AB2	R	234	240	Right-handed alpha
Helix 12	AB3	R	260	265	Right-handed alpha
Helix 13	AB4	R	265	279	Right-handed alpha
Helix 14	AB5	R	279	299	Right-handed alpha
Helix 15	AB6	R	299	304	Right-handed alpha
Helix 16	AB7	R	308	339	Right-handed alpha
Helix 17	AB8	R	342	360	Right-handed alpha
Helix 18	AB9	R	362	372	Right-handed alpha
Helix 19	AC1	E	28	32	Right-handed 310
Helix 20	AC2	E	53	56	Right-handed 310
Helix 21	AC3	E	74	76	Right-handed 310
Helix 22	AC4	E	87	91	Right-handed 310
Helix 23	AC5	A	7	38	Right-handed alpha
Helix 24	AC6	A	51	55	Right-handed 310
Helix 25	AC7	A	215	221	Right-handed 310
Helix 26	AC8	A	234	250	Right-handed alpha
Helix 27	AC9	A	251	255	Right-handed 310
Helix 28	AD1	A	265	276	Right-handed alpha
Helix 29	AD2	A	279	284	Right-handed alpha
Helix 30	AD3	A	285	290	Right-handed 310
Helix 31	AD4	A	303	325	Right-handed alpha
Helix 32	AD5	A	342	363	Right-handed alpha

There are 15 sheets in PDB entry 9D4Z. 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 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	B	47	51	first strand
Strand 2	B	336	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 AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	60	63	first strand
Strand 2	B	69	73	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	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	B	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	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	B	146	151	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	166	170	anti-parallel
Strand 4	B	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	B	187	192	first strand
Strand 2	B	198	203	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 AA6 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 AA7 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	308	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	R	43	45	first strand
Strand 2	R	257	259	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	R	244	245	first strand
Strand 2	R	252	253	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	E	3	7	first strand
Strand 2	E	17	25	anti-parallel
Strand 3	E	78	84	anti-parallel
Strand 4	E	68	73	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	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 3 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	155	160	first strand
Strand 2	E	211	216	anti-parallel
Strand 3	E	203	208	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	194	195	first strand
Strand 2	E	186	190	anti-parallel
Strand 3	E	174	179	anti-parallel
Strand 4	E	226	231	anti-parallel
Strand 5	E	243	244	anti-parallel

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There are 3 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	189	191	first strand
Strand 2	A	199	206	anti-parallel
Strand 3	A	194	196	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	A	189	191	first strand
Strand 2	A	199	206	anti-parallel
Strand 3	A	40	46	parallel
Strand 4	A	225	231	parallel
Strand 5	A	258	264	parallel
Strand 6	A	331	332	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: 9D4Z

Analysis of interatomic Contacts of Structural Units in PDB entry:
9D4Z