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

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 8ZMD entry

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

Chain ID	Initial residue	Terminal residue
A	SER 13	VAL 394
B	GLU 3	ASN 340
G	ALA 12	PHE 61
R	SER 37	LEU 359

There are 30 helices in PDB entry 8ZMD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	17	38	Right-handed alpha
Helix 2	AA2	A	52	60	Right-handed alpha
Helix 3	AA3	A	234	238	Right-handed 310
Helix 4	AA4	A	265	278	Right-handed alpha
Helix 5	AA5	A	279	283	Right-handed 310
Helix 6	AA6	A	293	304	Right-handed alpha
Helix 7	AA7	A	307	311	Right-handed 310
Helix 8	AA8	A	312	318	Right-handed 310
Helix 9	AA9	A	331	351	Right-handed alpha
Helix 10	AB1	A	370	391	Right-handed alpha
Helix 11	AB2	B	4	25	Right-handed alpha
Helix 12	AB3	G	13	24	Right-handed alpha
Helix 13	AB4	G	29	44	Right-handed alpha
Helix 14	AB5	G	55	59	Right-handed 310
Helix 15	AB6	R	62	70	Right-handed alpha
Helix 16	AB7	R	76	102	Right-handed alpha
Helix 17	AB8	R	108	125	Right-handed alpha
Helix 18	AB9	R	127	137	Right-handed alpha
Helix 19	AC1	R	145	178	Right-handed alpha
Helix 20	AC2	R	183	203	Right-handed alpha
Helix 21	AC3	R	204	205	Right-handed 310
Helix 22	AC4	R	206	210	Right-handed 310
Helix 23	AC5	R	232	236	Right-handed alpha
Helix 24	AC6	R	237	250	Right-handed alpha
Helix 25	AC7	R	251	270	Right-handed alpha
Helix 26	AC8	R	278	317	Right-handed alpha
Helix 27	AC9	R	322	334	Right-handed alpha
Helix 28	AD1	R	335	340	Right-handed alpha
Helix 29	AD2	R	341	343	Right-handed 310
Helix 30	AD3	R	349	359	Right-handed alpha

There are 10 sheets in PDB entry 8ZMD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	207	214	first strand
Strand 2	A	217	224	anti-parallel
Strand 3	A	40	47	parallel
Strand 4	A	243	248	parallel
Strand 5	A	286	291	parallel
Strand 6	A	359	363	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	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 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	89	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	103	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	135	140	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	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 AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	38	40	first strand
Strand 2	R	229	231	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	R	215	218	first strand
Strand 2	R	223	226	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: 8ZMD

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