Analysis of interatomic Contacts of Structural Units in PDB entry:
7CMD

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 7CMD entry

There are 4 chains in PDB entry 7CMD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 0	LYS 315
B	ALA 0	LYS 315
C	ALA 0	ILE 314
D	ALA 0	LYS 315

There are 37 helices in PDB entry 7CMD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	27	32	Right-handed alpha
Helix 2	AA2	A	47	51	Right-handed 310
Helix 3	AA3	A	61	73	Right-handed alpha
Helix 4	AA4	A	78	91	Right-handed alpha
Helix 5	AA5	A	110	123	Right-handed alpha
Helix 6	AA6	A	129	141	Right-handed alpha
Helix 7	AA7	A	144	155	Right-handed alpha
Helix 8	AA8	A	164	176	Right-handed alpha
Helix 9	AA9	A	202	204	Right-handed 310
Helix 10	AB1	A	212	219	Right-handed alpha
Helix 11	AB2	B	26	31	Right-handed alpha
Helix 12	AB3	B	61	73	Right-handed alpha
Helix 13	AB4	B	78	91	Right-handed alpha
Helix 14	AB5	B	110	121	Right-handed alpha
Helix 15	AB6	B	129	141	Right-handed alpha
Helix 16	AB7	B	144	155	Right-handed alpha
Helix 17	AB8	B	164	175	Right-handed alpha
Helix 18	AB9	B	201	205	Right-handed alpha
Helix 19	AC1	B	212	218	Right-handed alpha
Helix 20	AC2	C	26	31	Right-handed alpha
Helix 21	AC3	C	61	73	Right-handed alpha
Helix 22	AC4	C	78	91	Right-handed alpha
Helix 23	AC5	C	110	121	Right-handed alpha
Helix 24	AC6	C	129	141	Right-handed alpha
Helix 25	AC7	C	144	155	Right-handed alpha
Helix 26	AC8	C	164	175	Right-handed alpha
Helix 27	AC9	C	201	205	Right-handed alpha
Helix 28	AD1	C	212	219	Right-handed alpha
Helix 29	AD2	D	26	32	Right-handed alpha
Helix 30	AD3	D	61	73	Right-handed alpha
Helix 31	AD4	D	78	91	Right-handed alpha
Helix 32	AD5	D	110	121	Right-handed alpha
Helix 33	AD6	D	129	140	Right-handed alpha
Helix 34	AD7	D	144	155	Right-handed alpha
Helix 35	AD8	D	164	175	Right-handed alpha
Helix 36	AD9	D	202	204	Right-handed 310
Helix 37	AE1	D	212	219	Right-handed alpha

There are 14 sheets in PDB entry 7CMD. 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 10 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	39	40	first strand
Strand 2	A	34	36	anti-parallel
Strand 3	A	54	57	anti-parallel
Strand 4	A	4	10	parallel
Strand 5	A	15	22	anti-parallel
Strand 6	B	15	22	anti-parallel
Strand 7	B	4	10	anti-parallel
Strand 8	B	54	57	parallel
Strand 9	B	34	36	anti-parallel
Strand 10	B	39	40	anti-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	97	98	first strand
Strand 2	A	101	102	anti-parallel

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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	A	194	200	first strand
Strand 2	A	182	188	anti-parallel
Strand 3	A	232	238	anti-parallel
Strand 4	A	309	311	anti-parallel

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There are 7 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	206	208	first strand
Strand 2	A	241	254	parallel
Strand 3	A	295	306	anti-parallel
Strand 4	A	260	265	anti-parallel
Strand 5	A	272	278	anti-parallel
Strand 6	A	282	286	anti-parallel
Strand 7	A	289	293	anti-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	97	98	first strand
Strand 2	B	101	102	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	193	200	first strand
Strand 2	B	182	189	anti-parallel
Strand 3	B	233	238	anti-parallel
Strand 4	B	309	311	anti-parallel

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There are 7 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	206	208	first strand
Strand 2	B	241	254	parallel
Strand 3	B	295	306	anti-parallel
Strand 4	B	260	265	anti-parallel
Strand 5	B	272	278	anti-parallel
Strand 6	B	282	286	anti-parallel
Strand 7	B	289	293	anti-parallel

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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	C	17	22	first strand
Strand 2	C	4	10	anti-parallel
Strand 3	C	54	57	parallel
Strand 4	C	34	36	anti-parallel
Strand 5	C	39	40	anti-parallel

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There are 4 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	193	200	first strand
Strand 2	C	182	189	anti-parallel
Strand 3	C	234	238	anti-parallel
Strand 4	C	309	311	anti-parallel

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There are 7 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	206	208	first strand
Strand 2	C	241	254	parallel
Strand 3	C	295	306	anti-parallel
Strand 4	C	260	265	anti-parallel
Strand 5	C	272	278	anti-parallel
Strand 6	C	282	286	anti-parallel
Strand 7	C	289	293	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	17	22	first strand
Strand 2	D	4	10	anti-parallel
Strand 3	D	54	57	parallel
Strand 4	D	34	36	anti-parallel
Strand 5	D	39	40	anti-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	97	98	first strand
Strand 2	D	101	102	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	D	194	200	first strand
Strand 2	D	182	188	anti-parallel
Strand 3	D	232	238	anti-parallel
Strand 4	D	309	311	anti-parallel

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There are 7 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	206	208	first strand
Strand 2	D	241	254	parallel
Strand 3	D	295	306	anti-parallel
Strand 4	D	260	265	anti-parallel
Strand 5	D	272	278	anti-parallel
Strand 6	D	282	286	anti-parallel
Strand 7	D	289	293	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: 7CMD

Analysis of interatomic Contacts of Structural Units in PDB entry:
7CMD