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

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 5VMC entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 1	PRO 321
B	GLY 1	GLU 164
C	ASP 1	PRO 321
D	GLY 1	GLU 164
E	ASP 1	PRO 321
F	GLY 1	SER 163

There are 26 helices in PDB entry 5VMC. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	56	63	Right-handed alpha
Helix 2	AA2	A	64	68	Right-handed 310
Helix 3	AA3	A	97	105	Right-handed alpha
Helix 4	AA4	A	118	123	Right-handed alpha
Helix 5	AA5	A	183	192	Right-handed alpha
Helix 6	AA6	B	37	58	Right-handed alpha
Helix 7	AA7	B	74	127	Right-handed alpha
Helix 8	AA8	B	145	154	Right-handed alpha
Helix 9	AA9	B	158	163	Right-handed alpha
Helix 10	AB1	C	56	63	Right-handed alpha
Helix 11	AB2	C	97	105	Right-handed alpha
Helix 12	AB3	C	118	123	Right-handed alpha
Helix 13	AB4	C	183	192	Right-handed alpha
Helix 14	AB5	D	37	58	Right-handed alpha
Helix 15	AB6	D	74	127	Right-handed alpha
Helix 16	AB7	D	145	154	Right-handed alpha
Helix 17	AB8	D	158	162	Right-handed 310
Helix 18	AB9	E	56	63	Right-handed alpha
Helix 19	AC1	E	64	68	Right-handed 310
Helix 20	AC2	E	97	105	Right-handed alpha
Helix 21	AC3	E	118	123	Right-handed alpha
Helix 22	AC4	E	183	192	Right-handed alpha
Helix 23	AC5	F	37	58	Right-handed alpha
Helix 24	AC6	F	74	127	Right-handed alpha
Helix 25	AC7	F	145	154	Right-handed alpha
Helix 26	AC8	F	158	163	Right-handed alpha

There are 34 sheets in PDB entry 5VMC. 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, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7,

There are 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	31	36	first strand
Strand 2	B	22	28	anti-parallel
Strand 3	A	2	7	anti-parallel
Strand 4	B	137	140	anti-parallel
Strand 5	B	130	134	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	15	16	first strand
Strand 2	A	24	25	anti-parallel

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There are 2 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	29	31	first strand
Strand 2	A	312	314	anti-parallel

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There are 3 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	33	34	first strand
Strand 2	A	291	292	parallel
Strand 3	A	304	305	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	A	41	44	first strand
Strand 2	A	271	276	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	A	50	51	first strand
Strand 2	A	79	81	parallel
Strand 3	A	264	266	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	A	108	115	first strand
Strand 2	A	252	258	anti-parallel
Strand 3	A	171	180	anti-parallel
Strand 4	A	247	250	anti-parallel
Strand 5	A	147	149	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	A	108	115	first strand
Strand 2	A	252	258	anti-parallel
Strand 3	A	171	180	anti-parallel
Strand 4	A	225	233	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	132	137	first strand
Strand 2	A	140	142	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	A	160	165	first strand
Strand 2	A	238	243	anti-parallel
Strand 3	A	198	201	anti-parallel
Strand 4	A	206	209	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	284	285	first strand
Strand 2	A	278	279	anti-parallel
Strand 3	A	299	300	anti-parallel
Strand 4	B	64	65	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	D	31	36	first strand
Strand 2	D	22	28	anti-parallel
Strand 3	C	2	7	anti-parallel
Strand 4	D	137	140	anti-parallel
Strand 5	D	130	134	anti-parallel

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There are 2 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	15	16	first strand
Strand 2	C	24	25	anti-parallel

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There are 2 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	29	31	first strand
Strand 2	C	312	314	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	C	33	34	first strand
Strand 2	C	291	292	parallel
Strand 3	C	304	305	parallel

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There are 2 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	41	44	first strand
Strand 2	C	271	276	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	C	50	51	first strand
Strand 2	C	79	81	parallel
Strand 3	C	264	266	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	108	115	first strand
Strand 2	C	252	258	anti-parallel
Strand 3	C	171	180	anti-parallel
Strand 4	C	247	250	anti-parallel
Strand 5	C	147	149	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	108	115	first strand
Strand 2	C	252	258	anti-parallel
Strand 3	C	171	180	anti-parallel
Strand 4	C	225	233	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	132	137	first strand
Strand 2	C	140	142	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	C	160	165	first strand
Strand 2	C	238	243	anti-parallel
Strand 3	C	198	201	anti-parallel
Strand 4	C	206	209	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	284	285	first strand
Strand 2	C	278	279	anti-parallel
Strand 3	C	299	300	anti-parallel
Strand 4	D	64	65	anti-parallel

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There are 5 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	31	36	first strand
Strand 2	F	22	28	anti-parallel
Strand 3	E	2	7	anti-parallel
Strand 4	F	137	140	anti-parallel
Strand 5	F	130	132	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	15	16	first strand
Strand 2	E	24	25	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	29	31	first strand
Strand 2	E	312	314	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	33	34	first strand
Strand 2	E	291	292	parallel
Strand 3	E	304	305	parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	41	44	first strand
Strand 2	E	271	276	parallel

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There are 3 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	50	51	first strand
Strand 2	E	79	81	parallel
Strand 3	E	264	266	parallel

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There are 5 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	112	115	first strand
Strand 2	E	252	256	anti-parallel
Strand 3	E	171	180	anti-parallel
Strand 4	E	247	250	anti-parallel
Strand 5	E	147	149	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	112	115	first strand
Strand 2	E	252	256	anti-parallel
Strand 3	E	171	180	anti-parallel
Strand 4	E	225	233	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	126	127	first strand
Strand 2	E	151	152	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	132	137	first strand
Strand 2	E	140	142	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	160	165	first strand
Strand 2	E	238	243	anti-parallel
Strand 3	E	198	201	anti-parallel
Strand 4	E	206	209	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	284	285	first strand
Strand 2	E	278	279	anti-parallel
Strand 3	E	299	300	anti-parallel
Strand 4	F	64	65	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: 5VMC

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