Analysis of interatomic Contacts of Structural Units in PDB entry:
2VQE

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 2VQE entry

There are 24 chains in PDB entry 2VQE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	U 5	U 1544
B	THR 6	GLU 241
C	GLY 2	ILE 208
D	GLY 2	ARG 209
E	ASP 5	GLU 155
F	MET 1	ALA 101
G	ALA 2	TRP 156
H	MET 1	TRP 138
I	GLU 2	ARG 128
J	LYS 3	VAL 101
K	LYS 11	SER 129
L	PRO 5	ALA 129
M	ALA 2	LYS 126
N	ALA 2	TRP 61
O	PRO 2	GLY 89
P	MET 1	ALA 84
Q	PRO 2	ALA 105
R	PRO 16	LYS 88
S	PRO 2	GLY 82
T	ARG 8	ALA 106
U	GLY 2	LYS 26
X	U 1	A 3
Y	U 33	U 33
Y	A 35	C 39

There are 88 helices in PDB entry 2VQE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	B	25	29	Right-handed 310
Helix 2	2	B	43	63	Right-handed alpha
Helix 3	3	B	104	122	Right-handed alpha
Helix 4	4	B	131	136	Right-handed alpha
Helix 5	5	B	137	149	Right-handed alpha
Helix 6	6	B	151	155	Right-handed 310
Helix 7	7	B	170	180	Right-handed alpha
Helix 8	8	B	193	197	Right-handed 310
Helix 9	9	B	207	224	Right-handed alpha
Helix 10	10	C	28	45	Right-handed alpha
Helix 11	11	C	72	76	Right-handed 310
Helix 12	12	C	82	95	Right-handed alpha
Helix 13	13	C	112	126	Right-handed alpha
Helix 14	14	C	129	144	Right-handed alpha
Helix 15	15	C	177	180	Right-handed 310
Helix 16	16	D	8	16	Right-handed alpha
Helix 17	17	D	32	36	Right-handed 310
Helix 18	18	D	52	69	Right-handed alpha
Helix 19	19	D	71	85	Right-handed alpha
Helix 20	20	D	88	99	Right-handed alpha
Helix 21	21	D	100	108	Right-handed alpha
Helix 22	22	D	113	123	Right-handed alpha
Helix 23	23	D	150	153	Right-handed 310
Helix 24	24	D	155	165	Right-handed alpha
Helix 25	25	D	190	194	Right-handed 310
Helix 26	26	D	199	207	Right-handed alpha
Helix 27	27	E	50	63	Right-handed alpha
Helix 28	28	E	103	112	Right-handed alpha
Helix 29	29	E	127	142	Right-handed alpha
Helix 30	30	E	144	152	Right-handed alpha
Helix 31	31	F	15	31	Right-handed alpha
Helix 32	32	F	32	34	Right-handed 310
Helix 33	33	F	68	70	Right-handed 310
Helix 34	34	F	71	82	Right-handed alpha
Helix 35	35	G	20	31	Right-handed alpha
Helix 36	36	G	35	50	Right-handed alpha
Helix 37	37	G	57	70	Right-handed alpha
Helix 38	38	G	92	109	Right-handed alpha
Helix 39	39	G	115	129	Right-handed alpha
Helix 40	40	G	132	145	Right-handed alpha
Helix 41	41	G	148	155	Right-handed 310
Helix 42	42	H	4	19	Right-handed alpha
Helix 43	43	H	29	42	Right-handed alpha
Helix 44	44	H	96	100	Right-handed 310
Helix 45	45	H	102	107	Right-handed 310
Helix 46	46	H	121	127	Right-handed alpha
Helix 47	47	I	32	37	Right-handed alpha
Helix 48	48	I	42	46	Right-handed 310
Helix 49	49	I	47	54	Right-handed alpha
Helix 50	50	I	69	89	Right-handed alpha
Helix 51	51	I	92	97	Right-handed alpha
Helix 52	52	J	21	26	Right-handed alpha
Helix 53	53	J	80	85	Right-handed alpha
Helix 54	54	K	52	56	Right-handed 310
Helix 55	55	K	57	74	Right-handed alpha
Helix 56	56	K	90	100	Right-handed alpha
Helix 57	57	K	122	126	Right-handed 310
Helix 58	58	L	6	13	Right-handed alpha
Helix 59	59	L	116	121	Right-handed 310
Helix 60	60	M	14	20	Right-handed alpha
Helix 61	61	M	27	34	Right-handed alpha
Helix 62	62	M	45	48	Right-handed 310
Helix 63	63	M	49	62	Right-handed alpha
Helix 64	64	M	66	84	Right-handed alpha
Helix 65	65	M	86	94	Right-handed alpha
Helix 66	66	M	107	112	Right-handed alpha
Helix 67	67	N	3	10	Right-handed 310
Helix 68	68	N	16	20	Right-handed 310
Helix 69	69	N	40	51	Right-handed alpha
Helix 70	70	O	4	14	Right-handed alpha
Helix 71	71	O	24	43	Right-handed alpha
Helix 72	72	O	49	74	Right-handed alpha
Helix 73	73	O	74	86	Right-handed alpha
Helix 74	74	P	52	61	Right-handed alpha
Helix 75	75	P	67	77	Right-handed alpha
Helix 76	76	Q	81	94	Right-handed alpha
Helix 77	77	Q	95	98	Right-handed 310
Helix 78	78	R	36	41	Right-handed alpha
Helix 79	79	R	52	57	Right-handed alpha
Helix 80	80	R	59	76	Right-handed alpha
Helix 81	81	S	12	25	Right-handed alpha
Helix 82	82	S	41	45	Right-handed 310
Helix 83	83	S	63	67	Right-handed 310
Helix 84	84	S	71	75	Right-handed 310
Helix 85	85	T	12	46	Right-handed alpha
Helix 86	86	T	48	67	Right-handed alpha
Helix 87	87	T	75	93	Right-handed alpha
Helix 88	88	U	8	15	Right-handed alpha

There are 25 sheets in PDB entry 2VQE. Click on sheet of interest to get list of strands forming it: BA, BB, CA, CB, A, EA, EB, FA, FB, FC, GA, HA, HB, HC, IA, IB, JA, JB, KA, KB, LA, LB, PA, QA, SA,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	32	36	first strand
Strand 2	B	39	42	anti-parallel

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There are 5 strands in BB 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	68	71	parallel
Strand 3	B	161	164	parallel
Strand 4	B	185	186	parallel
Strand 5	B	199	200	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	55	first strand
Strand 2	C	67	70	anti-parallel
Strand 3	C	102	105	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	169	171	first strand
Strand 2	C	148	153	anti-parallel
Strand 3	C	198	203	anti-parallel
Strand 4	C	182	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	131	132	first strand
Strand 2	D	126	128	anti-parallel
Strand 3	D	145	148	anti-parallel
Strand 4	D	182	184	anti-parallel
Strand 5	D	176	177	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	7	20	first strand
Strand 2	E	23	35	anti-parallel
Strand 3	E	40	48	anti-parallel
Strand 4	E	66	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	80	84	first strand
Strand 2	E	87	93	anti-parallel
Strand 3	E	118	124	anti-parallel
Strand 4	E	100	101	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	39	40	first strand
Strand 2	F	55	67	anti-parallel
Strand 3	F	2	10	anti-parallel
Strand 4	F	85	92	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	39	40	first strand
Strand 2	F	55	67	anti-parallel
Strand 3	F	44	52	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	98	99	first strand
Strand 2	R	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	73	76	first strand
Strand 2	G	87	90	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	47	53	first strand
Strand 2	H	56	62	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	94	95	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	109	114	anti-parallel
Strand 4	H	117	120	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	13	21	anti-parallel
Strand 3	I	9	10	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	13	21	anti-parallel
Strand 3	I	59	66	anti-parallel
Strand 4	I	26	28	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	68	70	first strand
Strand 2	J	6	10	anti-parallel
Strand 3	J	95	98	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	46	48	first strand
Strand 2	J	62	64	anti-parallel
Strand 3	N	57	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	39	42	first strand
Strand 2	K	28	33	anti-parallel
Strand 3	K	16	23	anti-parallel
Strand 4	K	79	85	parallel
Strand 5	K	104	107	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	109	110	first strand
Strand 2	R	85	86	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	32	37	first strand
Strand 2	L	82	87	anti-parallel
Strand 3	L	98	100	anti-parallel
Strand 4	L	65	69	parallel
Strand 5	L	57	60	anti-parallel
Strand 6	L	32	37	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	42	43	first strand
Strand 2	L	53	54	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	49	51	first strand
Strand 2	P	34	39	anti-parallel
Strand 3	P	17	23	anti-parallel
Strand 4	P	2	8	anti-parallel
Strand 5	P	65	66	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	5	15	first strand
Strand 2	Q	56	66	anti-parallel
Strand 3	Q	69	78	anti-parallel
Strand 4	Q	35	45	parallel
Strand 5	Q	18	28	anti-parallel
Strand 6	Q	5	15	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	32	33	first strand
Strand 2	S	48	52	parallel
Strand 3	S	57	61	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: 2VQE

Analysis of interatomic Contacts of Structural Units in PDB entry:
2VQE