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

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 1YWK entry

There are 6 chains in PDB entry 1YWK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 998	GLU 1260
B	LEU 998	GLU 1260
C	GLN 999	GLY 1259
D	GLN 999	GLU 1260
E	LEU 998	GLU 1260
F	GLN 999	GLU 1260

There are 22 helices in PDB entry 1YWK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	1008	1013	Right-handed alpha
Helix 2	2	A	1016	1024	Right-handed alpha
Helix 3	3	A	1062	1066	Right-handed 310
Helix 4	4	A	1152	1156	Right-handed 310
Helix 5	5	B	1016	1024	Right-handed alpha
Helix 6	6	B	1062	1066	Right-handed 310
Helix 7	7	B	1152	1156	Right-handed 310
Helix 8	8	C	1008	1013	Right-handed alpha
Helix 9	9	C	1016	1024	Right-handed alpha
Helix 10	10	C	1062	1066	Right-handed 310
Helix 11	11	C	1152	1156	Right-handed 310
Helix 12	12	D	1008	1013	Right-handed alpha
Helix 13	13	D	1016	1024	Right-handed alpha
Helix 14	14	D	1062	1066	Right-handed 310
Helix 15	15	D	1141	1145	Right-handed 310
Helix 16	16	D	1152	1156	Right-handed 310
Helix 17	17	E	1016	1024	Right-handed alpha
Helix 18	18	E	1062	1066	Right-handed 310
Helix 19	19	E	1152	1156	Right-handed 310
Helix 20	20	F	1016	1024	Right-handed alpha
Helix 21	21	F	1062	1066	Right-handed 310
Helix 22	22	F	1152	1156	Right-handed 310

There are 24 sheets in PDB entry 1YWK. 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, Q, R, S, T, U, V, W, X,

There are 7 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	999	1004	first strand
Strand 2	A	1035	1040	parallel
Strand 3	A	1045	1050	anti-parallel
Strand 4	A	1124	1130	anti-parallel
Strand 5	A	1074	1080	anti-parallel
Strand 6	A	1101	1104	anti-parallel
Strand 7	A	1138	1140	anti-parallel

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There are 6 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	1025	1026	first strand
Strand 2	A	1233	1237	anti-parallel
Strand 3	A	1200	1206	anti-parallel
Strand 4	A	1252	1258	anti-parallel
Strand 5	A	1176	1182	anti-parallel
Strand 6	A	1159	1165	anti-parallel

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There are 4 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	1057	1058	first strand
Strand 2	A	1111	1115	anti-parallel
Strand 3	A	1085	1089	anti-parallel
Strand 4	A	1092	1096	anti-parallel

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There are 3 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	1225	1229	first strand
Strand 2	A	1214	1218	anti-parallel
Strand 3	A	1245	1247	anti-parallel

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There are 7 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	999	1004	first strand
Strand 2	B	1035	1040	parallel
Strand 3	B	1045	1050	anti-parallel
Strand 4	B	1124	1130	anti-parallel
Strand 5	B	1074	1080	anti-parallel
Strand 6	B	1101	1104	anti-parallel
Strand 7	B	1138	1140	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1025	1026	first strand
Strand 2	B	1233	1237	anti-parallel
Strand 3	B	1201	1206	anti-parallel
Strand 4	B	1252	1257	anti-parallel
Strand 5	B	1176	1182	anti-parallel
Strand 6	B	1159	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1057	1058	first strand
Strand 2	B	1111	1115	anti-parallel
Strand 3	B	1085	1089	anti-parallel
Strand 4	B	1092	1096	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	1225	1229	first strand
Strand 2	B	1214	1218	anti-parallel
Strand 3	B	1245	1247	anti-parallel

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There are 7 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1000	1004	first strand
Strand 2	C	1035	1040	parallel
Strand 3	C	1045	1050	anti-parallel
Strand 4	C	1124	1130	anti-parallel
Strand 5	C	1074	1080	anti-parallel
Strand 6	C	1101	1104	anti-parallel
Strand 7	C	1138	1140	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1025	1026	first strand
Strand 2	C	1233	1237	anti-parallel
Strand 3	C	1200	1206	anti-parallel
Strand 4	C	1252	1258	anti-parallel
Strand 5	C	1176	1182	anti-parallel
Strand 6	C	1159	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1057	1058	first strand
Strand 2	C	1111	1115	anti-parallel
Strand 3	C	1085	1089	anti-parallel
Strand 4	C	1092	1096	anti-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	C	1225	1229	first strand
Strand 2	C	1214	1218	anti-parallel
Strand 3	C	1245	1247	anti-parallel

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There are 7 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1000	1004	first strand
Strand 2	D	1035	1040	parallel
Strand 3	D	1045	1050	anti-parallel
Strand 4	D	1124	1130	anti-parallel
Strand 5	D	1074	1080	anti-parallel
Strand 6	D	1101	1104	anti-parallel
Strand 7	D	1138	1140	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1025	1026	first strand
Strand 2	D	1233	1237	anti-parallel
Strand 3	D	1200	1206	anti-parallel
Strand 4	D	1252	1258	anti-parallel
Strand 5	D	1176	1182	anti-parallel
Strand 6	D	1159	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1057	1058	first strand
Strand 2	D	1111	1115	anti-parallel
Strand 3	D	1085	1089	anti-parallel
Strand 4	D	1092	1096	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1225	1229	first strand
Strand 2	D	1214	1218	anti-parallel
Strand 3	D	1245	1247	anti-parallel

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There are 7 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	999	1004	first strand
Strand 2	E	1035	1040	parallel
Strand 3	E	1045	1050	anti-parallel
Strand 4	E	1124	1130	anti-parallel
Strand 5	E	1074	1080	anti-parallel
Strand 6	E	1101	1104	anti-parallel
Strand 7	E	1138	1140	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	1025	1026	first strand
Strand 2	E	1233	1237	anti-parallel
Strand 3	E	1201	1206	anti-parallel
Strand 4	E	1252	1257	anti-parallel
Strand 5	E	1176	1182	anti-parallel
Strand 6	E	1159	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	1057	1058	first strand
Strand 2	E	1111	1115	anti-parallel
Strand 3	E	1085	1089	anti-parallel
Strand 4	E	1092	1096	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	1225	1229	first strand
Strand 2	E	1214	1218	anti-parallel
Strand 3	E	1245	1247	anti-parallel

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There are 7 strands in U sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	1000	1004	first strand
Strand 2	F	1035	1040	parallel
Strand 3	F	1045	1050	anti-parallel
Strand 4	F	1124	1130	anti-parallel
Strand 5	F	1074	1080	anti-parallel
Strand 6	F	1101	1104	anti-parallel
Strand 7	F	1138	1140	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	1025	1026	first strand
Strand 2	F	1233	1237	anti-parallel
Strand 3	F	1201	1206	anti-parallel
Strand 4	F	1252	1257	anti-parallel
Strand 5	F	1176	1182	anti-parallel
Strand 6	F	1159	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	1057	1058	first strand
Strand 2	F	1111	1115	anti-parallel
Strand 3	F	1085	1089	anti-parallel
Strand 4	F	1092	1096	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	1225	1229	first strand
Strand 2	F	1214	1218	anti-parallel
Strand 3	F	1245	1247	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: 1YWK

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