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

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 2YVJ entry

There are 3 chains in PDB entry 2YVJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 5	VAL 406
B	THR 2	LEU 107
P	LEU 6	VAL 406

There are 24 helices in PDB entry 2YVJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	16	28	Right-handed alpha
Helix 2	2	A	48	53	Right-handed 310
Helix 3	3	A	54	59	Right-handed alpha
Helix 4	4	A	133	140	Right-handed alpha
Helix 5	5	A	154	168	Right-handed alpha
Helix 6	6	A	186	199	Right-handed alpha
Helix 7	7	A	241	247	Right-handed alpha
Helix 8	8	A	290	307	Right-handed alpha
Helix 9	9	A	370	383	Right-handed alpha
Helix 10	10	A	388	394	Right-handed alpha
Helix 11	11	A	398	405	Right-handed alpha
Helix 12	12	P	16	30	Right-handed alpha
Helix 13	13	P	48	52	Right-handed 310
Helix 14	14	P	53	57	Right-handed 310
Helix 15	15	P	60	65	Right-handed 310
Helix 16	16	P	116	120	Right-handed 310
Helix 17	17	P	132	140	Right-handed alpha
Helix 18	18	P	154	168	Right-handed alpha
Helix 19	19	P	186	199	Right-handed alpha
Helix 20	20	P	241	248	Right-handed alpha
Helix 21	21	P	290	307	Right-handed alpha
Helix 22	22	P	370	384	Right-handed alpha
Helix 23	23	P	388	394	Right-handed alpha
Helix 24	24	P	398	404	Right-handed alpha

There are 16 sheets in PDB entry 2YVJ. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P,

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	A	75	78	first strand
Strand 2	A	35	39	parallel
Strand 3	A	10	13	parallel
Strand 4	A	104	107	parallel
Strand 5	A	268	270	parallel

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There are 3 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	82	86	first strand
Strand 2	A	91	94	anti-parallel
Strand 3	A	99	101	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	111	113	first strand
Strand 2	A	237	239	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	126	127	first strand
Strand 2	A	231	233	parallel
Strand 3	A	146	151	parallel
Strand 4	A	169	174	parallel
Strand 5	A	202	205	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	210	214	first strand
Strand 2	A	217	220	anti-parallel
Strand 3	A	225	227	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	255	256	first strand
Strand 2	A	275	278	parallel
Strand 3	A	285	287	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	318	322	first strand
Strand 2	A	327	332	anti-parallel
Strand 3	A	361	368	anti-parallel
Strand 4	A	351	358	anti-parallel
Strand 5	A	338	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	4	8	first strand
Strand 2	B	97	100	anti-parallel
Strand 3	B	91	93	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	17	22	first strand
Strand 2	B	25	32	anti-parallel
Strand 3	B	35	40	anti-parallel
Strand 4	B	88	89	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	55	57	first strand
Strand 2	B	60	62	anti-parallel
Strand 3	B	69	71	anti-parallel
Strand 4	B	77	79	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	75	78	first strand
Strand 2	P	35	39	parallel
Strand 3	P	10	13	parallel
Strand 4	P	104	107	parallel
Strand 5	P	268	270	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	82	86	first strand
Strand 2	P	91	94	anti-parallel
Strand 3	P	99	101	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	111	113	first strand
Strand 2	P	237	239	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	205	206	first strand
Strand 2	P	173	175	parallel
Strand 3	P	149	151	parallel
Strand 4	P	231	232	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	255	256	first strand
Strand 2	P	275	279	parallel
Strand 3	P	284	286	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	318	323	first strand
Strand 2	P	326	332	anti-parallel
Strand 3	P	361	368	anti-parallel
Strand 4	P	351	358	anti-parallel
Strand 5	P	338	344	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: 2YVJ

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