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

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 5DMX entry

There are 6 chains in PDB entry 5DMX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	GLU 305
B	SER 2	GLU 305
C	MET 1	GLU 305
D	ALA 4	LEU 304
E	ALA 4	GLU 305
F	MET 1	GLU 305

There are 55 helices in PDB entry 5DMX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2	8	Right-handed alpha
Helix 2	AA2	A	20	38	Right-handed alpha
Helix 3	AA3	A	51	58	Right-handed 310
Helix 4	AA4	A	73	82	Right-handed alpha
Helix 5	AA5	A	90	98	Right-handed alpha
Helix 6	AA6	A	99	109	Right-handed alpha
Helix 7	AA7	A	228	246	Right-handed alpha
Helix 8	AA8	A	279	287	Right-handed alpha
Helix 9	AA9	A	291	302	Right-handed alpha
Helix 10	AB1	B	20	38	Right-handed alpha
Helix 11	AB2	B	51	58	Right-handed 310
Helix 12	AB3	B	73	82	Right-handed alpha
Helix 13	AB4	B	90	98	Right-handed alpha
Helix 14	AB5	B	99	109	Right-handed alpha
Helix 15	AB6	B	125	134	Right-handed alpha
Helix 16	AB7	B	228	246	Right-handed alpha
Helix 17	AB8	B	279	287	Right-handed alpha
Helix 18	AB9	B	291	302	Right-handed alpha
Helix 19	AC1	C	20	38	Right-handed alpha
Helix 20	AC2	C	51	58	Right-handed 310
Helix 21	AC3	C	73	82	Right-handed alpha
Helix 22	AC4	C	90	98	Right-handed alpha
Helix 23	AC5	C	99	109	Right-handed alpha
Helix 24	AC6	C	127	134	Right-handed alpha
Helix 25	AC7	C	228	246	Right-handed alpha
Helix 26	AC8	C	279	287	Right-handed alpha
Helix 27	AC9	C	291	302	Right-handed alpha
Helix 28	AD1	D	20	38	Right-handed alpha
Helix 29	AD2	D	51	58	Right-handed 310
Helix 30	AD3	D	73	83	Right-handed alpha
Helix 31	AD4	D	90	98	Right-handed alpha
Helix 32	AD5	D	99	109	Right-handed alpha
Helix 33	AD6	D	125	134	Right-handed alpha
Helix 34	AD7	D	158	163	Right-handed alpha
Helix 35	AD8	D	230	246	Right-handed alpha
Helix 36	AD9	D	279	287	Right-handed alpha
Helix 37	AE1	D	291	302	Right-handed alpha
Helix 38	AE2	E	20	38	Right-handed alpha
Helix 39	AE3	E	51	58	Right-handed 310
Helix 40	AE4	E	73	82	Right-handed alpha
Helix 41	AE5	E	90	98	Right-handed alpha
Helix 42	AE6	E	99	109	Right-handed alpha
Helix 43	AE7	E	234	246	Right-handed alpha
Helix 44	AE8	E	279	287	Right-handed alpha
Helix 45	AE9	E	291	302	Right-handed alpha
Helix 46	AF1	F	2	8	Right-handed alpha
Helix 47	AF2	F	20	38	Right-handed alpha
Helix 48	AF3	F	51	58	Right-handed 310
Helix 49	AF4	F	73	82	Right-handed alpha
Helix 50	AF5	F	90	98	Right-handed alpha
Helix 51	AF6	F	99	109	Right-handed alpha
Helix 52	AF7	F	127	134	Right-handed alpha
Helix 53	AF8	F	228	246	Right-handed alpha
Helix 54	AF9	F	279	287	Right-handed alpha
Helix 55	AG1	F	291	302	Right-handed alpha

There are 21 sheets in PDB entry 5DMX. 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, AC1, AC2, AC3,

There are 3 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	41	45	first strand
Strand 2	A	9	13	parallel
Strand 3	A	60	63	parallel

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There are 2 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	117	118	first strand
Strand 2	A	175	176	anti-parallel

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There are 3 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	192	193	first strand
Strand 2	A	181	189	anti-parallel
Strand 3	A	197	198	anti-parallel

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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	A	192	193	first strand
Strand 2	A	181	189	anti-parallel
Strand 3	A	251	259	anti-parallel
Strand 4	A	264	270	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	B	41	45	first strand
Strand 2	B	9	13	parallel
Strand 3	B	60	63	parallel

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There are 3 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	117	120	first strand
Strand 2	B	173	177	anti-parallel
Strand 3	B	137	141	anti-parallel

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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	B	192	193	first strand
Strand 2	B	181	189	anti-parallel
Strand 3	B	197	198	anti-parallel

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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	192	193	first strand
Strand 2	B	181	189	anti-parallel
Strand 3	B	251	259	anti-parallel
Strand 4	B	264	270	anti-parallel

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There are 3 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	41	45	first strand
Strand 2	C	9	13	parallel
Strand 3	C	60	63	parallel

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There are 3 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	117	118	first strand
Strand 2	C	175	177	anti-parallel
Strand 3	C	137	139	anti-parallel

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There are 3 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	192	193	first strand
Strand 2	C	181	189	anti-parallel
Strand 3	C	197	198	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	192	193	first strand
Strand 2	C	181	189	anti-parallel
Strand 3	C	251	259	anti-parallel
Strand 4	C	264	270	anti-parallel

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There are 3 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	41	45	first strand
Strand 2	D	9	13	parallel
Strand 3	D	60	63	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	D	117	119	first strand
Strand 2	D	173	177	anti-parallel
Strand 3	D	137	141	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	192	193	first strand
Strand 2	D	181	189	anti-parallel
Strand 3	D	197	198	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	192	193	first strand
Strand 2	D	181	189	anti-parallel
Strand 3	D	251	259	anti-parallel
Strand 4	D	264	270	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	41	45	first strand
Strand 2	E	9	13	parallel
Strand 3	E	60	63	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	188	189	first strand
Strand 2	E	192	193	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	41	45	first strand
Strand 2	F	9	13	parallel
Strand 3	F	60	63	parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	192	193	first strand
Strand 2	F	181	189	anti-parallel
Strand 3	F	197	198	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	192	193	first strand
Strand 2	F	181	189	anti-parallel
Strand 3	F	251	259	anti-parallel
Strand 4	F	264	270	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: 5DMX

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