Analysis of interatomic Contacts of Structural Units in PDB entry:
5MDJ

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 5MDJ entry

There are 2 chains in PDB entry 5MDJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
L	ALA 3	HIS 603
S	ARG 6	PHE 273

There are 42 helices in PDB entry 5MDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	L	54	59	Right-handed alpha
Helix 2	AA2	L	66	73	Right-handed alpha
Helix 3	AA3	L	80	95	Right-handed alpha
Helix 4	AA4	L	99	125	Right-handed alpha
Helix 5	AA5	L	126	130	Right-handed 310
Helix 6	AA6	L	134	139	Right-handed 310
Helix 7	AA7	L	140	152	Right-handed alpha
Helix 8	AA8	L	159	176	Right-handed alpha
Helix 9	AA9	L	179	183	Right-handed 310
Helix 10	AB1	L	195	217	Right-handed alpha
Helix 11	AB2	L	217	225	Right-handed alpha
Helix 12	AB3	L	254	275	Right-handed alpha
Helix 13	AB4	L	275	290	Right-handed alpha
Helix 14	AB5	L	296	301	Right-handed 310
Helix 15	AB6	L	315	317	Right-handed 310
Helix 16	AB7	L	364	368	Right-handed 310
Helix 17	AB8	L	412	426	Right-handed alpha
Helix 18	AB9	L	431	447	Right-handed alpha
Helix 19	AC1	L	447	454	Right-handed alpha
Helix 20	AC2	L	461	466	Right-handed alpha
Helix 21	AC3	L	468	500	Right-handed alpha
Helix 22	AC4	L	512	516	Right-handed 310
Helix 23	AC5	L	551	558	Right-handed alpha
Helix 24	AC6	L	567	574	Right-handed alpha
Helix 25	AC7	L	584	593	Right-handed alpha
Helix 26	AC8	L	597	603	Right-handed alpha
Helix 27	AC9	S	18	25	Right-handed alpha
Helix 28	AD1	S	52	67	Right-handed alpha
Helix 29	AD2	S	82	86	Right-handed 310
Helix 30	AD3	S	95	104	Right-handed alpha
Helix 31	AD4	S	113	118	Right-handed alpha
Helix 32	AD5	S	120	124	Right-handed 310
Helix 33	AD6	S	133	138	Right-handed alpha
Helix 34	AD7	S	152	167	Right-handed alpha
Helix 35	AD8	S	178	183	Right-handed alpha
Helix 36	AD9	S	185	190	Right-handed alpha
Helix 37	AE1	S	192	198	Right-handed alpha
Helix 38	AE2	S	207	212	Right-handed alpha
Helix 39	AE3	S	216	220	Right-handed 310
Helix 40	AE4	S	222	226	Right-handed 310
Helix 41	AE5	S	256	260	Right-handed 310
Helix 42	AE6	S	269	273	Right-handed 310

There are 9 sheets in PDB entry 5MDJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	6	first strand
Strand 2	L	9	11	anti-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	L	16	20	first strand
Strand 2	L	30	36	anti-parallel
Strand 3	L	42	49	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	L	303	305	first strand
Strand 2	L	324	326	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	L	308	310	first strand
Strand 2	L	319	321	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	L	345	348	first strand
Strand 2	L	401	404	anti-parallel

Back to list of sheets
Back to top of page

There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	381	383	first strand
Strand 2	L	386	389	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	519	528	first strand
Strand 2	L	531	540	anti-parallel
Strand 3	L	543	550	anti-parallel

Back to list of sheets
Back to top of page

There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	42	45	first strand
Strand 2	S	9	13	parallel
Strand 3	S	72	76	parallel
Strand 4	S	108	112	parallel
Strand 5	S	143	146	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	S	89	90	first strand
Strand 2	S	93	94	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: 5MDJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
5MDJ