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

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 9MDF entry

There are 4 chains in PDB entry 9MDF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 1	ALA 329
B	GLY 1	ALA 329
C	GLY 1	ALA 329
D	SER 2	LYS 328

There are 56 helices in PDB entry 9MDF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	18	20	Right-handed 310
Helix 2	AA2	A	48	54	Right-handed alpha
Helix 3	AA3	A	55	57	Right-handed 310
Helix 4	AA4	A	114	120	Right-handed 310
Helix 5	AA5	A	123	135	Right-handed alpha
Helix 6	AA6	A	152	165	Right-handed alpha
Helix 7	AA7	A	175	186	Right-handed alpha
Helix 8	AA8	A	198	207	Right-handed alpha
Helix 9	AA9	A	219	228	Right-handed alpha
Helix 10	AB1	A	241	246	Right-handed alpha
Helix 11	AB2	A	256	263	Right-handed alpha
Helix 12	AB3	A	271	275	Right-handed 310
Helix 13	AB4	A	276	293	Right-handed alpha
Helix 14	AB5	A	308	318	Right-handed alpha
Helix 15	AB6	B	18	20	Right-handed 310
Helix 16	AB7	B	48	54	Right-handed alpha
Helix 17	AB8	B	55	57	Right-handed 310
Helix 18	AB9	B	114	120	Right-handed 310
Helix 19	AC1	B	123	135	Right-handed alpha
Helix 20	AC2	B	152	165	Right-handed alpha
Helix 21	AC3	B	175	186	Right-handed alpha
Helix 22	AC4	B	198	207	Right-handed alpha
Helix 23	AC5	B	219	228	Right-handed alpha
Helix 24	AC6	B	241	246	Right-handed alpha
Helix 25	AC7	B	256	264	Right-handed alpha
Helix 26	AC8	B	271	275	Right-handed 310
Helix 27	AC9	B	276	293	Right-handed alpha
Helix 28	AD1	B	308	318	Right-handed alpha
Helix 29	AD2	C	18	20	Right-handed 310
Helix 30	AD3	C	48	54	Right-handed alpha
Helix 31	AD4	C	55	57	Right-handed 310
Helix 32	AD5	C	114	120	Right-handed 310
Helix 33	AD6	C	123	135	Right-handed alpha
Helix 34	AD7	C	152	165	Right-handed alpha
Helix 35	AD8	C	175	186	Right-handed alpha
Helix 36	AD9	C	198	207	Right-handed alpha
Helix 37	AE1	C	220	228	Right-handed alpha
Helix 38	AE2	C	241	245	Right-handed 310
Helix 39	AE3	C	256	263	Right-handed alpha
Helix 40	AE4	C	271	275	Right-handed 310
Helix 41	AE5	C	276	293	Right-handed alpha
Helix 42	AE6	C	308	318	Right-handed alpha
Helix 43	AE7	D	18	20	Right-handed 310
Helix 44	AE8	D	48	54	Right-handed alpha
Helix 45	AE9	D	55	57	Right-handed 310
Helix 46	AF1	D	114	120	Right-handed 310
Helix 47	AF2	D	123	135	Right-handed alpha
Helix 48	AF3	D	152	165	Right-handed alpha
Helix 49	AF4	D	175	186	Right-handed alpha
Helix 50	AF5	D	198	207	Right-handed alpha
Helix 51	AF6	D	219	228	Right-handed alpha
Helix 52	AF7	D	241	246	Right-handed alpha
Helix 53	AF8	D	256	263	Right-handed alpha
Helix 54	AF9	D	271	275	Right-handed 310
Helix 55	AG1	D	276	293	Right-handed alpha
Helix 56	AG2	D	308	318	Right-handed alpha

There are 14 sheets in PDB entry 9MDF. 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 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	A	3	9	first strand
Strand 2	A	22	28	anti-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	A	84	87	first strand
Strand 2	A	67	74	anti-parallel
Strand 3	A	37	45	anti-parallel
Strand 4	A	94	97	anti-parallel

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There are 5 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	84	87	first strand
Strand 2	A	67	74	anti-parallel
Strand 3	A	37	45	anti-parallel
Strand 4	A	324	328	anti-parallel
Strand 5	A	300	304	parallel

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There are 12 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	189	192	first strand
Strand 2	A	168	173	parallel
Strand 3	A	144	148	parallel
Strand 4	A	211	216	parallel
Strand 5	A	230	238	parallel
Strand 6	A	266	269	parallel
Strand 7	B	266	269	anti-parallel
Strand 8	B	230	238	parallel
Strand 9	B	211	216	parallel
Strand 10	B	144	148	parallel
Strand 11	B	168	173	parallel
Strand 12	B	189	192	parallel

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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	B	3	9	first strand
Strand 2	B	22	28	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	84	87	first strand
Strand 2	B	67	74	anti-parallel
Strand 3	B	37	45	anti-parallel
Strand 4	B	94	97	anti-parallel

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There are 5 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	84	87	first strand
Strand 2	B	67	74	anti-parallel
Strand 3	B	37	45	anti-parallel
Strand 4	B	324	328	anti-parallel
Strand 5	B	300	304	parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	3	9	first strand
Strand 2	C	22	28	anti-parallel

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There are 5 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	94	97	first strand
Strand 2	C	37	45	anti-parallel
Strand 3	C	67	74	anti-parallel
Strand 4	C	84	87	anti-parallel
Strand 5	C	103	104	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	94	97	first strand
Strand 2	C	37	45	anti-parallel
Strand 3	C	324	328	anti-parallel
Strand 4	C	300	304	parallel

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There are 12 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	189	192	first strand
Strand 2	C	168	173	parallel
Strand 3	C	144	148	parallel
Strand 4	C	211	216	parallel
Strand 5	C	230	238	parallel
Strand 6	C	266	269	parallel
Strand 7	D	266	269	anti-parallel
Strand 8	D	230	238	parallel
Strand 9	D	211	216	parallel
Strand 10	D	144	148	parallel
Strand 11	D	168	173	parallel
Strand 12	D	189	192	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	9	first strand
Strand 2	D	22	28	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	94	97	first strand
Strand 2	D	37	45	anti-parallel
Strand 3	D	67	74	anti-parallel
Strand 4	D	84	87	anti-parallel
Strand 5	D	103	104	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	94	97	first strand
Strand 2	D	37	45	anti-parallel
Strand 3	D	324	328	anti-parallel
Strand 4	D	300	304	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: 9MDF

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