Analysis of interatomic Contacts of Structural Units in PDB entry:
1VDH

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 1VDH entry

There are 5 chains in PDB entry 1VDH (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 3	LEU 249
B	ARG 3	LEU 249
C	ARG 3	LEU 249
D	ARG 3	LEU 249
E	ARG 3	LEU 249

There are 54 helices in PDB entry 1VDH. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	25	32	Right-handed alpha
Helix 2	2	A	33	57	Right-handed alpha
Helix 3	3	A	82	96	Right-handed alpha
Helix 4	4	A	97	100	Right-handed 310
Helix 5	5	A	128	133	Right-handed 310
Helix 6	6	A	158	160	Right-handed 310
Helix 7	7	A	161	178	Right-handed alpha
Helix 8	8	A	206	218	Right-handed alpha
Helix 9	9	A	220	226	Right-handed alpha
Helix 10	10	A	239	247	Right-handed alpha
Helix 11	11	B	25	32	Right-handed alpha
Helix 12	12	B	33	57	Right-handed alpha
Helix 13	13	B	82	95	Right-handed alpha
Helix 14	14	B	97	100	Right-handed 310
Helix 15	15	B	128	133	Right-handed 310
Helix 16	16	B	158	160	Right-handed 310
Helix 17	17	B	161	177	Right-handed alpha
Helix 18	18	B	178	180	Right-handed 310
Helix 19	19	B	207	218	Right-handed alpha
Helix 20	20	B	220	226	Right-handed alpha
Helix 21	21	B	239	247	Right-handed alpha
Helix 22	22	C	25	32	Right-handed alpha
Helix 23	23	C	33	57	Right-handed alpha
Helix 24	24	C	82	96	Right-handed alpha
Helix 25	25	C	97	100	Right-handed 310
Helix 26	26	C	128	133	Right-handed 310
Helix 27	27	C	158	160	Right-handed 310
Helix 28	28	C	161	176	Right-handed alpha
Helix 29	29	C	177	180	Right-handed 310
Helix 30	30	C	207	218	Right-handed alpha
Helix 31	31	C	220	226	Right-handed alpha
Helix 32	32	C	239	247	Right-handed alpha
Helix 33	33	D	25	32	Right-handed alpha
Helix 34	34	D	33	57	Right-handed alpha
Helix 35	35	D	82	96	Right-handed alpha
Helix 36	36	D	97	100	Right-handed 310
Helix 37	37	D	128	133	Right-handed 310
Helix 38	38	D	158	160	Right-handed 310
Helix 39	39	D	161	177	Right-handed alpha
Helix 40	40	D	178	180	Right-handed 310
Helix 41	41	D	207	218	Right-handed alpha
Helix 42	42	D	220	226	Right-handed alpha
Helix 43	43	D	239	247	Right-handed alpha
Helix 44	44	E	25	32	Right-handed alpha
Helix 45	45	E	33	57	Right-handed alpha
Helix 46	46	E	83	96	Right-handed alpha
Helix 47	47	E	97	100	Right-handed 310
Helix 48	48	E	128	133	Right-handed 310
Helix 49	49	E	158	160	Right-handed 310
Helix 50	50	E	161	177	Right-handed alpha
Helix 51	51	E	178	180	Right-handed 310
Helix 52	52	E	207	218	Right-handed alpha
Helix 53	53	E	220	226	Right-handed alpha
Helix 54	54	E	239	247	Right-handed alpha

There are 10 sheets in PDB entry 1VDH. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

There are 10 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	227	229	first strand
Strand 2	A	141	149	anti-parallel
Strand 3	A	233	237	anti-parallel
Strand 4	A	61	67	anti-parallel
Strand 5	A	74	80	anti-parallel
Strand 6	A	10	24	anti-parallel
Strand 7	A	102	116	anti-parallel
Strand 8	A	184	189	anti-parallel
Strand 9	A	198	204	anti-parallel
Strand 10	A	141	149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	151	152	first strand
Strand 2	A	155	156	anti-parallel

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There are 10 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	227	229	first strand
Strand 2	B	141	149	anti-parallel
Strand 3	B	233	237	anti-parallel
Strand 4	B	61	67	anti-parallel
Strand 5	B	74	80	anti-parallel
Strand 6	B	10	24	anti-parallel
Strand 7	B	102	116	anti-parallel
Strand 8	B	183	189	anti-parallel
Strand 9	B	198	204	anti-parallel
Strand 10	B	141	149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	151	152	first strand
Strand 2	B	155	156	anti-parallel

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There are 10 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	227	229	first strand
Strand 2	C	141	149	anti-parallel
Strand 3	C	233	237	anti-parallel
Strand 4	C	61	67	anti-parallel
Strand 5	C	74	80	anti-parallel
Strand 6	C	10	24	anti-parallel
Strand 7	C	102	116	anti-parallel
Strand 8	C	184	189	anti-parallel
Strand 9	C	198	204	anti-parallel
Strand 10	C	141	149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	151	152	first strand
Strand 2	C	155	156	anti-parallel

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There are 10 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	227	229	first strand
Strand 2	D	141	149	anti-parallel
Strand 3	D	233	237	anti-parallel
Strand 4	D	61	67	anti-parallel
Strand 5	D	74	80	anti-parallel
Strand 6	D	10	24	anti-parallel
Strand 7	D	102	116	anti-parallel
Strand 8	D	184	189	anti-parallel
Strand 9	D	198	204	anti-parallel
Strand 10	D	141	149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	151	152	first strand
Strand 2	D	155	156	anti-parallel

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There are 10 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	227	229	first strand
Strand 2	E	141	149	anti-parallel
Strand 3	E	233	237	anti-parallel
Strand 4	E	61	67	anti-parallel
Strand 5	E	74	80	anti-parallel
Strand 6	E	10	24	anti-parallel
Strand 7	E	102	116	anti-parallel
Strand 8	E	184	189	anti-parallel
Strand 9	E	198	204	anti-parallel
Strand 10	E	141	149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	151	152	first strand
Strand 2	E	155	156	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: 1VDH

Analysis of interatomic Contacts of Structural Units in PDB entry:
1VDH