Analysis of interatomic Contacts of Structural Units in PDB entry:
9MD1

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 9MD1 entry

There are 5 chains in PDB entry 9MD1 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 6	CYS 355
B	LYS 15	ASN 340
C	TYR 35	ILE 415
G	LEU 19	PHE 61
R	TYR 35	ILE 415

There are 35 helices in PDB entry 9MD1. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	32	Right-handed alpha
Helix 2	AA2	A	330	352	Right-handed alpha
Helix 3	AA3	B	16	26	Right-handed alpha
Helix 4	AA4	B	29	34	Right-handed alpha
Helix 5	AA5	C	36	64	Right-handed alpha
Helix 6	AA6	C	69	89	Right-handed alpha
Helix 7	AA7	C	89	100	Right-handed alpha
Helix 8	AA8	C	105	140	Right-handed alpha
Helix 9	AA9	C	140	147	Right-handed alpha
Helix 10	AB1	C	149	167	Right-handed alpha
Helix 11	AB2	C	169	173	Right-handed 310
Helix 12	AB3	C	192	204	Right-handed alpha
Helix 13	AB4	C	204	228	Right-handed alpha
Helix 14	AB5	C	331	368	Right-handed alpha
Helix 15	AB6	C	369	371	Right-handed 310
Helix 16	AB7	C	378	391	Right-handed alpha
Helix 17	AB8	C	391	401	Right-handed alpha
Helix 18	AB9	C	404	415	Right-handed alpha
Helix 19	AC1	G	20	25	Right-handed alpha
Helix 20	AC2	G	29	44	Right-handed alpha
Helix 21	AC3	G	45	48	Right-handed 310
Helix 22	AC4	R	36	63	Right-handed alpha
Helix 23	AC5	R	69	89	Right-handed alpha
Helix 24	AC6	R	89	100	Right-handed alpha
Helix 25	AC7	R	105	140	Right-handed alpha
Helix 26	AC8	R	140	147	Right-handed alpha
Helix 27	AC9	R	149	168	Right-handed alpha
Helix 28	AD1	R	192	204	Right-handed alpha
Helix 29	AD2	R	204	228	Right-handed alpha
Helix 30	AD3	R	331	338	Right-handed alpha
Helix 31	AD4	R	344	368	Right-handed alpha
Helix 32	AD5	R	369	371	Right-handed 310
Helix 33	AD6	R	378	391	Right-handed alpha
Helix 34	AD7	R	391	401	Right-handed alpha
Helix 35	AD8	R	404	415	Right-handed alpha

There are 8 sheets in PDB entry 9MD1. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

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	186	191	first strand
Strand 2	A	196	201	anti-parallel
Strand 3	A	33	38	parallel
Strand 4	A	221	227	parallel
Strand 5	A	264	270	parallel
Strand 6	A	320	324	parallel

Back to list of sheets
Back to top of page

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	49	52	first strand
Strand 2	B	335	338	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	320	anti-parallel

Back to list of sheets
Back to top of page

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	88	94	anti-parallel

Back to list of sheets
Back to top of page

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	102	105	first strand
Strand 2	B	111	115	anti-parallel
Strand 3	B	121	125	anti-parallel
Strand 4	B	135	139	anti-parallel

Back to list of sheets
Back to top of page

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	151	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	165	170	anti-parallel
Strand 4	B	175	181	anti-parallel

Back to list of sheets
Back to top of page

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	208	212	anti-parallel
Strand 4	B	218	222	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	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	259	264	anti-parallel

Back to list of sheets
Back to top of page

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	307	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: 9MD1

Analysis of interatomic Contacts of Structural Units in PDB entry:
9MD1