Analysis of interatomic Contacts of Structural Units in PDB entry:
3MDB

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 3MDB entry

There are 4 chains in PDB entry 3MDB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	CYS 448	PRO 545
B	CYS 448	PRO 545
C	HIS -12	PHE 370
D	ARG 5	VAL 366

There are 28 helices in PDB entry 3MDB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	C	3	13	Right-handed alpha
Helix 2	2	C	41	50	Right-handed alpha
Helix 3	3	C	66	75	Right-handed alpha
Helix 4	4	C	77	86	Right-handed alpha
Helix 5	5	C	101	114	Right-handed alpha
Helix 6	6	C	120	128	Right-handed 310
Helix 7	7	C	185	190	Right-handed alpha
Helix 8	8	C	214	237	Right-handed alpha
Helix 9	9	C	241	246	Right-handed alpha
Helix 10	10	C	247	249	Right-handed 310
Helix 11	11	C	301	305	Right-handed 310
Helix 12	12	C	340	357	Right-handed alpha
Helix 13	13	C	360	370	Right-handed alpha
Helix 14	14	D	5	13	Right-handed alpha
Helix 15	15	D	41	49	Right-handed alpha
Helix 16	16	D	66	76	Right-handed alpha
Helix 17	17	D	77	86	Right-handed alpha
Helix 18	18	D	101	114	Right-handed alpha
Helix 19	19	D	120	123	Right-handed 310
Helix 20	20	D	124	129	Right-handed alpha
Helix 21	21	D	178	180	Right-handed 310
Helix 22	22	D	185	190	Right-handed alpha
Helix 23	23	D	214	237	Right-handed alpha
Helix 24	24	D	241	246	Right-handed alpha
Helix 25	25	D	247	249	Right-handed 310
Helix 26	26	D	301	305	Right-handed 310
Helix 27	27	D	340	356	Right-handed alpha
Helix 28	28	D	360	366	Right-handed 310

There are 11 sheets in PDB entry 3MDB. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	464	466	first strand
Strand 2	A	449	452	anti-parallel
Strand 3	A	538	543	anti-parallel
Strand 4	A	531	534	anti-parallel
Strand 5	A	513	515	anti-parallel
Strand 6	A	518	519	anti-parallel

Back to list of sheets
Back to top of page

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	481	482	first strand
Strand 2	A	470	474	parallel
Strand 3	A	493	497	anti-parallel
Strand 4	A	503	507	anti-parallel
Strand 5	A	524	526	anti-parallel

Back to list of sheets
Back to top of page

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	464	466	first strand
Strand 2	B	449	452	anti-parallel
Strand 3	B	538	543	anti-parallel
Strand 4	B	531	534	anti-parallel
Strand 5	B	513	515	anti-parallel
Strand 6	B	518	519	anti-parallel

Back to list of sheets
Back to top of page

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	481	482	first strand
Strand 2	B	470	474	parallel
Strand 3	B	493	496	anti-parallel
Strand 4	B	504	507	anti-parallel
Strand 5	B	524	525	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	38	40	first strand
Strand 2	C	31	33	anti-parallel
Strand 3	C	57	59	anti-parallel

Back to list of sheets
Back to top of page

There are 7 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	173	176	first strand
Strand 2	C	159	163	anti-parallel
Strand 3	C	146	154	anti-parallel
Strand 4	C	131	139	anti-parallel
Strand 5	C	204	211	anti-parallel
Strand 6	C	194	201	anti-parallel
Strand 7	C	180	184	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	257	260	first strand
Strand 2	C	272	278	anti-parallel
Strand 3	C	281	285	anti-parallel
Strand 4	C	295	298	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	307	310	first strand
Strand 2	C	323	328	anti-parallel
Strand 3	C	333	338	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	38	40	first strand
Strand 2	D	31	33	anti-parallel
Strand 3	D	57	59	anti-parallel

Back to list of sheets
Back to top of page

There are 7 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	173	176	first strand
Strand 2	D	159	162	anti-parallel
Strand 3	D	146	154	anti-parallel
Strand 4	D	131	139	anti-parallel
Strand 5	D	204	211	anti-parallel
Strand 6	D	194	201	anti-parallel
Strand 7	D	181	184	anti-parallel

Back to list of sheets
Back to top of page

There are 7 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	295	298	first strand
Strand 2	D	281	285	anti-parallel
Strand 3	D	271	278	anti-parallel
Strand 4	D	257	261	anti-parallel
Strand 5	D	333	338	anti-parallel
Strand 6	D	323	328	anti-parallel
Strand 7	D	307	310	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: 3MDB

Analysis of interatomic Contacts of Structural Units in PDB entry:
3MDB