Analysis of interatomic Contacts of Structural Units in PDB entry:
5M1D

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 5M1D entry

There are 3 chains in PDB entry 5M1D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	TYR 6	ASN 492
B	TYR 6	PHE 491
C	ASN 7	ARG 380

There are 53 helices in PDB entry 5M1D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	8	19	Right-handed alpha
Helix 2	AA2	A	33	45	Right-handed alpha
Helix 3	AA3	A	69	76	Right-handed alpha
Helix 4	AA4	A	83	95	Right-handed alpha
Helix 5	AA5	A	115	119	Right-handed 310
Helix 6	AA6	A	128	132	Right-handed 310
Helix 7	AA7	A	138	140	Right-handed 310
Helix 8	AA8	A	141	145	Right-handed 310
Helix 9	AA9	A	197	210	Right-handed alpha
Helix 10	AB1	A	224	233	Right-handed alpha
Helix 11	AB2	A	240	250	Right-handed alpha
Helix 12	AB3	A	327	338	Right-handed alpha
Helix 13	AB4	A	340	348	Right-handed alpha
Helix 14	AB5	A	357	361	Right-handed 310
Helix 15	AB6	A	376	388	Right-handed alpha
Helix 16	AB7	A	389	393	Right-handed 310
Helix 17	AB8	A	409	421	Right-handed alpha
Helix 18	AB9	A	422	426	Right-handed alpha
Helix 19	AC1	A	474	489	Right-handed alpha
Helix 20	AC2	B	8	19	Right-handed alpha
Helix 21	AC3	B	33	45	Right-handed alpha
Helix 22	AC4	B	69	77	Right-handed alpha
Helix 23	AC5	B	81	83	Right-handed 310
Helix 24	AC6	B	84	95	Right-handed alpha
Helix 25	AC7	B	128	132	Right-handed 310
Helix 26	AC8	B	138	140	Right-handed 310
Helix 27	AC9	B	141	145	Right-handed 310
Helix 28	AD1	B	197	210	Right-handed alpha
Helix 29	AD2	B	224	233	Right-handed alpha
Helix 30	AD3	B	240	250	Right-handed alpha
Helix 31	AD4	B	327	348	Right-handed alpha
Helix 32	AD5	B	357	361	Right-handed 310
Helix 33	AD6	B	376	388	Right-handed alpha
Helix 34	AD7	B	389	393	Right-handed 310
Helix 35	AD8	B	409	421	Right-handed alpha
Helix 36	AD9	B	422	426	Right-handed alpha
Helix 37	AE1	B	474	489	Right-handed alpha
Helix 38	AE2	C	8	19	Right-handed alpha
Helix 39	AE3	C	33	45	Right-handed alpha
Helix 40	AE4	C	69	77	Right-handed alpha
Helix 41	AE5	C	81	83	Right-handed 310
Helix 42	AE6	C	84	94	Right-handed alpha
Helix 43	AE7	C	141	145	Right-handed 310
Helix 44	AE8	C	197	210	Right-handed alpha
Helix 45	AE9	C	224	233	Right-handed alpha
Helix 46	AF1	C	240	250	Right-handed alpha
Helix 47	AF2	C	327	348	Right-handed alpha
Helix 48	AF3	C	357	361	Right-handed 310
Helix 49	AF4	C	376	388	Right-handed alpha
Helix 50	AF5	C	389	393	Right-handed 310
Helix 51	AF6	C	409	421	Right-handed alpha
Helix 52	AF7	C	422	426	Right-handed alpha
Helix 53	AF8	C	474	489	Right-handed alpha

There are 18 sheets in PDB entry 5M1D. 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, AB6, AB7, AB8, AB9,

There are 4 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	22	25	first strand
Strand 2	A	49	52	parallel
Strand 3	A	62	64	anti-parallel
Strand 4	A	317	318	parallel

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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	123	125	first strand
Strand 2	A	254	257	parallel
Strand 3	A	264	266	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	133	136	first strand
Strand 2	A	299	311	anti-parallel
Strand 3	A	188	190	anti-parallel
Strand 4	A	181	185	anti-parallel
Strand 5	A	158	159	anti-parallel

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There are 6 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	133	136	first strand
Strand 2	A	299	311	anti-parallel
Strand 3	A	271	285	anti-parallel
Strand 4	A	215	221	anti-parallel
Strand 5	A	162	167	anti-parallel
Strand 6	A	174	178	anti-parallel

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There are 3 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	296	anti-parallel
Strand 3	B	469	470	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	351	355	first strand
Strand 2	A	365	370	anti-parallel
Strand 3	A	397	402	parallel
Strand 4	A	447	454	parallel
Strand 5	A	427	434	anti-parallel

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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	22	25	first strand
Strand 2	B	49	52	parallel
Strand 3	B	62	64	anti-parallel
Strand 4	B	317	318	parallel

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There are 3 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	123	125	first strand
Strand 2	B	254	257	parallel
Strand 3	B	264	266	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	B	133	136	first strand
Strand 2	B	299	311	anti-parallel
Strand 3	B	188	190	anti-parallel
Strand 4	B	181	185	anti-parallel
Strand 5	B	158	159	anti-parallel

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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	B	133	136	first strand
Strand 2	B	299	311	anti-parallel
Strand 3	B	271	285	anti-parallel
Strand 4	B	215	221	anti-parallel
Strand 5	B	162	167	anti-parallel
Strand 6	B	174	178	anti-parallel

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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	B	288	289	first strand
Strand 2	B	295	296	anti-parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	351	355	first strand
Strand 2	B	365	370	anti-parallel
Strand 3	B	397	402	parallel
Strand 4	B	447	454	parallel
Strand 5	B	427	434	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	22	25	first strand
Strand 2	C	49	52	parallel
Strand 3	C	62	64	anti-parallel
Strand 4	C	317	318	parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	123	124	first strand
Strand 2	C	254	257	parallel
Strand 3	C	264	266	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	135	136	first strand
Strand 2	C	299	311	anti-parallel
Strand 3	C	188	190	anti-parallel
Strand 4	C	181	185	anti-parallel
Strand 5	C	158	159	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	135	136	first strand
Strand 2	C	299	311	anti-parallel
Strand 3	C	271	285	anti-parallel
Strand 4	C	215	221	anti-parallel
Strand 5	C	162	167	anti-parallel
Strand 6	C	174	178	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	288	289	first strand
Strand 2	C	295	296	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	351	355	first strand
Strand 2	C	365	370	anti-parallel
Strand 3	C	397	402	parallel
Strand 4	C	447	454	parallel
Strand 5	C	427	434	anti-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: 5M1D

Analysis of interatomic Contacts of Structural Units in PDB entry:
5M1D