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

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 8DMK entry

There are 3 chains in PDB entry 8DMK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 28	GLU 332
B	GLY 29	CYS 335
G	MET 37	PRO 341

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	88	92	Right-handed 310
Helix 2	AA2	A	108	113	Right-handed 310
Helix 3	AA3	A	162	169	Right-handed alpha
Helix 4	AA4	A	219	226	Right-handed alpha
Helix 5	AA5	A	242	247	Right-handed alpha
Helix 6	AA6	A	257	262	Right-handed alpha
Helix 7	AA7	B	104	110	Right-handed 310
Helix 8	AA8	B	169	174	Right-handed alpha
Helix 9	AA9	B	221	226	Right-handed alpha
Helix 10	AB1	B	254	258	Right-handed 310
Helix 11	AB2	G	79	83	Right-handed 310
Helix 12	AB3	G	102	106	Right-handed 310
Helix 13	AB4	G	122	126	Right-handed 310
Helix 14	AB5	G	181	186	Right-handed alpha
Helix 15	AB6	G	233	236	Right-handed 310
Helix 16	AB7	G	237	245	Right-handed alpha
Helix 17	AB8	G	260	264	Right-handed 310
Helix 18	AB9	G	266	271	Right-handed alpha
Helix 19	AC1	G	321	324	Right-handed 310

There are 14 sheets in PDB entry 8DMK. 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,

There are 7 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	34	35	first strand
Strand 2	A	273	277	anti-parallel
Strand 3	A	114	132	anti-parallel
Strand 4	A	227	237	anti-parallel
Strand 5	A	141	147	anti-parallel
Strand 6	A	153	159	anti-parallel
Strand 7	A	189	190	parallel

Back to list of sheets
Back to top of page

There are 3 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	41	44	first strand
Strand 2	A	114	132	anti-parallel
Strand 3	A	203	207	anti-parallel

Back to list of sheets
Back to top of page

There are 2 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	54	57	first strand
Strand 2	A	73	76	anti-parallel

Back to list of sheets
Back to top of page

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	100	101	first strand
Strand 2	A	267	268	anti-parallel

Back to list of sheets
Back to top of page

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	288	289	first strand
Strand 2	A	294	295	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	40	41	first strand
Strand 2	B	261	269	anti-parallel
Strand 3	B	112	113	anti-parallel

Back to list of sheets
Back to top of page

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	40	41	first strand
Strand 2	B	261	269	anti-parallel
Strand 3	B	135	140	anti-parallel
Strand 4	B	204	206	anti-parallel

Back to list of sheets
Back to top of page

There are 6 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	50	52	first strand
Strand 2	B	121	125	anti-parallel
Strand 3	B	234	239	anti-parallel
Strand 4	B	147	152	anti-parallel
Strand 5	B	161	167	anti-parallel
Strand 6	B	190	191	parallel

Back to list of sheets
Back to top of page

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	B	131	132	first strand
Strand 2	B	229	230	anti-parallel

Back to list of sheets
Back to top of page

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	G	63	65	first strand
Strand 2	G	128	143	anti-parallel
Strand 3	G	246	255	anti-parallel
Strand 4	G	159	163	anti-parallel
Strand 5	G	174	179	anti-parallel
Strand 6	G	204	206	parallel

Back to list of sheets
Back to top of page

There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	74	75	first strand
Strand 2	G	91	92	anti-parallel

Back to list of sheets
Back to top of page

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	G	118	119	first strand
Strand 2	G	276	283	anti-parallel
Strand 3	G	147	152	anti-parallel
Strand 4	G	218	223	anti-parallel

Back to list of sheets
Back to top of page

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	G	292	297	first strand
Strand 2	G	303	307	anti-parallel

Back to list of sheets
Back to top of page

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	G	311	312	first strand
Strand 2	G	318	319	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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