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

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 5VQM entry

There are 2 chains in PDB entry 5VQM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 2	ALA 529
L	GLU 1	GLY 101

There are 60 helices in PDB entry 5VQM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	5	13	Right-handed alpha
Helix 2	AA2	A	21	35	Right-handed alpha
Helix 3	AA3	A	41	63	Right-handed alpha
Helix 4	AA4	A	68	90	Right-handed alpha
Helix 5	AA5	A	108	121	Right-handed alpha
Helix 6	AA6	A	137	156	Right-handed alpha
Helix 7	AA7	A	167	197	Right-handed alpha
Helix 8	AA8	A	201	214	Right-handed alpha
Helix 9	AA9	A	217	234	Right-handed alpha
Helix 10	AB1	A	243	249	Right-handed alpha
Helix 11	AB2	A	251	261	Right-handed alpha
Helix 12	AB3	A	264	280	Right-handed alpha
Helix 13	AB4	A	308	325	Right-handed alpha
Helix 14	AB5	A	334	338	Right-handed 310
Helix 15	AB6	A	339	353	Right-handed alpha
Helix 16	AB7	A	355	359	Right-handed 310
Helix 17	AB8	A	393	419	Right-handed alpha
Helix 18	AB9	A	423	439	Right-handed alpha
Helix 19	AC1	A	443	449	Right-handed alpha
Helix 20	AC2	A	452	456	Right-handed 310
Helix 21	AC3	A	464	469	Right-handed alpha
Helix 22	AC4	A	470	483	Right-handed alpha
Helix 23	AC5	A	494	499	Right-handed alpha
Helix 24	AC6	A	500	502	Right-handed 310
Helix 25	AC7	A	512	519	Right-handed alpha
Helix 26	AC8	L	79	83	Right-handed 310
Helix 27	AC9	L	121	127	Right-handed alpha
Helix 28	AD1	L	183	187	Right-handed alpha
Helix 29	AD2	H	28	32	Right-handed 310
Helix 30	AD3	H	87	91	Right-handed 310
Helix 31	AD4	B	5	13	Right-handed alpha
Helix 32	AD5	B	21	35	Right-handed alpha
Helix 33	AD6	B	41	63	Right-handed alpha
Helix 34	AD7	B	68	90	Right-handed alpha
Helix 35	AD8	B	108	121	Right-handed alpha
Helix 36	AD9	B	137	156	Right-handed alpha
Helix 37	AE1	B	167	197	Right-handed alpha
Helix 38	AE2	B	201	214	Right-handed alpha
Helix 39	AE3	B	217	234	Right-handed alpha
Helix 40	AE4	B	243	249	Right-handed alpha
Helix 41	AE5	B	251	261	Right-handed alpha
Helix 42	AE6	B	264	280	Right-handed alpha
Helix 43	AE7	B	308	325	Right-handed alpha
Helix 44	AE8	B	334	338	Right-handed 310
Helix 45	AE9	B	339	353	Right-handed alpha
Helix 46	AF1	B	355	359	Right-handed 310
Helix 47	AF2	B	393	419	Right-handed alpha
Helix 48	AF3	B	423	439	Right-handed alpha
Helix 49	AF4	B	443	449	Right-handed alpha
Helix 50	AF5	B	452	456	Right-handed 310
Helix 51	AF6	B	464	469	Right-handed alpha
Helix 52	AF7	B	470	483	Right-handed alpha
Helix 53	AF8	B	494	499	Right-handed alpha
Helix 54	AF9	B	500	502	Right-handed 310
Helix 55	AG1	B	512	519	Right-handed alpha
Helix 56	AG2	C	79	83	Right-handed 310
Helix 57	AG3	C	121	126	Right-handed alpha
Helix 58	AG4	C	183	187	Right-handed alpha
Helix 59	AG5	D	28	32	Right-handed 310
Helix 60	AG6	D	87	91	Right-handed 310

There are 29 sheets in PDB entry 5VQM. 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,

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	92	93	first strand
Strand 2	A	367	368	anti-parallel

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There are 6 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	237	239	first strand
Strand 2	A	126	131	parallel
Strand 3	A	97	101	parallel
Strand 4	A	282	285	parallel
Strand 5	A	381	389	anti-parallel
Strand 6	A	374	378	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	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	67	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	13	first strand
Strand 2	L	102	106	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	48	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	114	118	first strand
Strand 2	L	129	139	anti-parallel
Strand 3	L	173	182	anti-parallel
Strand 4	L	159	160	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	L	153	155	first strand
Strand 2	L	145	150	anti-parallel
Strand 3	L	191	197	anti-parallel
Strand 4	L	205	210	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	6	first strand
Strand 2	H	22	25	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	113	117	parallel
Strand 3	H	92	99	anti-parallel
Strand 4	H	33	39	anti-parallel
Strand 5	H	45	51	anti-parallel
Strand 6	H	58	60	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	H	10	12	first strand
Strand 2	H	113	117	parallel
Strand 3	H	92	99	anti-parallel
Strand 4	H	108	109	anti-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	H	18	20	first strand
Strand 2	H	78	83	anti-parallel
Strand 3	H	68	73	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	H	126	128	first strand
Strand 2	H	142	151	anti-parallel
Strand 3	H	182	190	anti-parallel
Strand 4	H	170	171	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	H	126	128	first strand
Strand 2	H	142	151	anti-parallel
Strand 3	H	182	190	anti-parallel
Strand 4	H	175	176	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	H	201	203	first strand
Strand 2	H	214	216	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	B	92	93	first strand
Strand 2	B	367	368	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	237	239	first strand
Strand 2	B	126	131	parallel
Strand 3	B	97	101	parallel
Strand 4	B	282	285	parallel
Strand 5	B	381	389	anti-parallel
Strand 6	B	374	378	anti-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	B	290	291	first strand
Strand 2	B	508	509	anti-parallel

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There are 4 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	4	7	first strand
Strand 2	C	19	25	anti-parallel
Strand 3	C	70	75	anti-parallel
Strand 4	C	62	67	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	10	13	first strand
Strand 2	C	102	106	parallel
Strand 3	C	85	90	anti-parallel
Strand 4	C	33	38	anti-parallel
Strand 5	C	45	46	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	10	13	first strand
Strand 2	C	102	106	parallel
Strand 3	C	85	90	anti-parallel
Strand 4	C	97	98	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	48	49	first strand
Strand 2	C	53	54	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	114	117	first strand
Strand 2	C	129	139	anti-parallel
Strand 3	C	173	182	anti-parallel
Strand 4	C	159	163	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	153	155	first strand
Strand 2	C	145	150	anti-parallel
Strand 3	C	192	197	anti-parallel
Strand 4	C	205	208	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	6	first strand
Strand 2	D	22	25	anti-parallel

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There are 6 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	12	first strand
Strand 2	D	113	117	parallel
Strand 3	D	92	99	anti-parallel
Strand 4	D	33	39	anti-parallel
Strand 5	D	45	51	anti-parallel
Strand 6	D	58	60	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	12	first strand
Strand 2	D	113	117	parallel
Strand 3	D	92	99	anti-parallel
Strand 4	D	108	109	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	D	18	20	first strand
Strand 2	D	78	83	anti-parallel
Strand 3	D	68	73	anti-parallel

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There are 3 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	142	146	first strand
Strand 2	D	186	190	anti-parallel
Strand 3	D	170	171	anti-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	D	149	151	first strand
Strand 2	D	182	183	anti-parallel
Strand 3	D	175	176	anti-parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	159	160	first strand
Strand 2	D	201	206	anti-parallel
Strand 3	D	211	216	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: 5VQM

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