Analysis of interatomic Contacts of Structural Units in PDB entry:
1LD4

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 1LD4 entry

There are 16 chains in PDB entry 1LD4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 1114	TRP 1264
B	ARG 4114	TRP 4264
C	ARG 5114	TRP 5264
D	ARG 6114	TRP 6264
E	MET 1150	LEU 1177
F	MET 1250	LEU 1277
G	MET 4150	LEU 4177
H	MET 4250	LEU 4277
I	MET 5150	LEU 5177
J	MET 5250	LEU 5277
K	MET 6150	LEU 6177
L	MET 6250	LEU 6277
M	TYR 1001	CYS 1380
N	TYR 4001	CYS 4380
O	TYR 5001	CYS 5380
P	TYR 6001	CYS 6380

There are 16 helices in PDB entry 1LD4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	1150	1154	Right-handed 310
Helix 2	2	A	1160	1162	Right-handed 310
Helix 3	3	A	1170	1174	Right-handed 310
Helix 4	4	B	4150	4154	Right-handed 310
Helix 5	5	B	4160	4162	Right-handed 310
Helix 6	6	B	4170	4174	Right-handed 310
Helix 7	7	C	5150	5154	Right-handed 310
Helix 8	8	C	5160	5162	Right-handed 310
Helix 9	9	C	5170	5174	Right-handed 310
Helix 10	10	D	6150	6154	Right-handed 310
Helix 11	11	D	6160	6162	Right-handed 310
Helix 12	12	D	6170	6174	Right-handed 310
Helix 13	13	M	1255	1259	Right-handed 310
Helix 14	14	N	4255	4259	Right-handed 310
Helix 15	15	O	5255	5259	Right-handed 310
Helix 16	16	P	6255	6259	Right-handed 310

There are 36 sheets in PDB entry 1LD4. 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, Y, Z, AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ,

There are 6 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	1145	1146	first strand
Strand 2	A	1115	1119	anti-parallel
Strand 3	A	1125	1132	anti-parallel
Strand 4	A	1135	1139	anti-parallel
Strand 5	A	1164	1168	anti-parallel
Strand 6	A	1157	1159	anti-parallel

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There are 7 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	1253	1256	first strand
Strand 2	A	1239	1247	anti-parallel
Strand 3	A	1202	1206	anti-parallel
Strand 4	A	1194	1199	anti-parallel
Strand 5	A	1187	1191	anti-parallel
Strand 6	A	1218	1220	anti-parallel
Strand 7	A	1226	1235	anti-parallel

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There are 6 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	4157	4159	first strand
Strand 2	B	4164	4168	anti-parallel
Strand 3	B	4135	4139	anti-parallel
Strand 4	B	4125	4132	anti-parallel
Strand 5	B	4115	4119	anti-parallel
Strand 6	B	4145	4146	anti-parallel

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There are 7 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	4253	4256	first strand
Strand 2	B	4239	4247	anti-parallel
Strand 3	B	4202	4206	anti-parallel
Strand 4	B	4194	4199	anti-parallel
Strand 5	B	4187	4191	anti-parallel
Strand 6	B	4218	4220	anti-parallel
Strand 7	B	4226	4235	anti-parallel

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There are 6 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	5157	5159	first strand
Strand 2	C	5164	5168	anti-parallel
Strand 3	C	5135	5139	anti-parallel
Strand 4	C	5125	5132	anti-parallel
Strand 5	C	5115	5119	anti-parallel
Strand 6	C	5145	5146	anti-parallel

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There are 7 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	5253	5256	first strand
Strand 2	C	5239	5247	anti-parallel
Strand 3	C	5202	5206	anti-parallel
Strand 4	C	5194	5199	anti-parallel
Strand 5	C	5187	5191	anti-parallel
Strand 6	C	5218	5220	anti-parallel
Strand 7	C	5226	5235	anti-parallel

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There are 6 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	6157	6159	first strand
Strand 2	D	6164	6168	anti-parallel
Strand 3	D	6135	6139	anti-parallel
Strand 4	D	6125	6132	anti-parallel
Strand 5	D	6115	6119	anti-parallel
Strand 6	D	6145	6146	anti-parallel

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There are 7 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	6253	6256	first strand
Strand 2	D	6239	6247	anti-parallel
Strand 3	D	6202	6206	anti-parallel
Strand 4	D	6194	6199	anti-parallel
Strand 5	D	6187	6191	anti-parallel
Strand 6	D	6218	6220	anti-parallel
Strand 7	D	6226	6235	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	1005	1008	first strand
Strand 2	M	1275	1280	anti-parallel
Strand 3	M	1161	1162	anti-parallel

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There are 8 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	1015	1018	first strand
Strand 2	M	1028	1038	anti-parallel
Strand 3	M	1268	1269	anti-parallel
Strand 4	M	1028	1038	anti-parallel
Strand 5	M	1130	1136	anti-parallel
Strand 6	M	1141	1143	anti-parallel
Strand 7	M	1130	1136	anti-parallel
Strand 8	M	1146	1147	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	M	1044	1048	first strand
Strand 2	M	1119	1122	anti-parallel
Strand 3	M	1177	1180	anti-parallel
Strand 4	M	1183	1186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	1051	1054	first strand
Strand 2	M	1107	1110	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	M	1081	1082	first strand
Strand 2	M	1101	1102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	1220	1221	first strand
Strand 2	M	1233	1234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	1318	1319	first strand
Strand 2	M	1353	1354	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	N	4005	4008	first strand
Strand 2	N	4275	4280	anti-parallel
Strand 3	N	4161	4162	anti-parallel

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There are 8 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4015	4018	first strand
Strand 2	N	4028	4038	anti-parallel
Strand 3	N	4268	4269	anti-parallel
Strand 4	N	4028	4038	anti-parallel
Strand 5	N	4130	4136	anti-parallel
Strand 6	N	4141	4143	anti-parallel
Strand 7	N	4130	4136	anti-parallel
Strand 8	N	4146	4147	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4044	4048	first strand
Strand 2	N	4119	4122	anti-parallel
Strand 3	N	4177	4180	anti-parallel
Strand 4	N	4183	4186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4051	4054	first strand
Strand 2	N	4107	4110	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4081	4082	first strand
Strand 2	N	4101	4102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4220	4221	first strand
Strand 2	N	4233	4234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	4318	4319	first strand
Strand 2	N	4353	4354	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5005	5008	first strand
Strand 2	O	5275	5280	anti-parallel
Strand 3	O	5161	5162	anti-parallel

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There are 8 strands in X sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5015	5018	first strand
Strand 2	O	5028	5038	anti-parallel
Strand 3	O	5268	5269	anti-parallel
Strand 4	O	5028	5038	anti-parallel
Strand 5	O	5130	5136	anti-parallel
Strand 6	O	5141	5143	anti-parallel
Strand 7	O	5130	5136	anti-parallel
Strand 8	O	5146	5147	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5044	5048	first strand
Strand 2	O	5119	5122	anti-parallel
Strand 3	O	5177	5180	anti-parallel
Strand 4	O	5183	5186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5051	5054	first strand
Strand 2	O	5107	5110	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5081	5082	first strand
Strand 2	O	5101	5102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5220	5221	first strand
Strand 2	O	5233	5234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	5318	5319	first strand
Strand 2	O	5353	5354	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6005	6008	first strand
Strand 2	P	6275	6280	anti-parallel
Strand 3	P	6161	6162	anti-parallel

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There are 8 strands in AE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6015	6018	first strand
Strand 2	P	6028	6038	anti-parallel
Strand 3	P	6268	6269	anti-parallel
Strand 4	P	6028	6038	anti-parallel
Strand 5	P	6130	6136	anti-parallel
Strand 6	P	6141	6143	anti-parallel
Strand 7	P	6130	6136	anti-parallel
Strand 8	P	6146	6147	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6044	6048	first strand
Strand 2	P	6119	6122	anti-parallel
Strand 3	P	6177	6180	anti-parallel
Strand 4	P	6183	6186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6051	6054	first strand
Strand 2	P	6107	6110	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6081	6082	first strand
Strand 2	P	6101	6102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6220	6221	first strand
Strand 2	P	6233	6234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	6318	6319	first strand
Strand 2	P	6353	6354	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: 1LD4

Analysis of interatomic Contacts of Structural Units in PDB entry:
1LD4