Analysis of interatomic Contacts of Structural Units in PDB entry:
4LDB

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 4LDB entry

There are 4 chains in PDB entry 4LDB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 44	SER 319
B	GLY 44	HIS 315
C	ASP 45	ALA 322
D	ASP 45	PRO 321

There are 29 helices in PDB entry 4LDB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	60	65	Right-handed alpha
Helix 2	2	A	107	117	Right-handed alpha
Helix 3	3	A	147	152	Right-handed alpha
Helix 4	4	A	159	163	Right-handed alpha
Helix 5	5	A	233	244	Right-handed alpha
Helix 6	6	A	254	256	Right-handed 310
Helix 7	7	A	264	273	Right-handed alpha
Helix 8	8	B	60	65	Right-handed alpha
Helix 9	9	B	107	117	Right-handed alpha
Helix 10	10	B	147	152	Right-handed alpha
Helix 11	11	B	159	163	Right-handed alpha
Helix 12	12	B	233	244	Right-handed alpha
Helix 13	13	B	264	273	Right-handed alpha
Helix 14	14	C	60	65	Right-handed alpha
Helix 15	15	C	107	117	Right-handed alpha
Helix 16	16	C	147	152	Right-handed alpha
Helix 17	17	C	159	163	Right-handed alpha
Helix 18	18	C	235	243	Right-handed alpha
Helix 19	19	C	244	247	Right-handed 310
Helix 20	20	C	254	256	Right-handed 310
Helix 21	21	C	264	272	Right-handed alpha
Helix 22	22	D	60	65	Right-handed alpha
Helix 23	23	D	107	117	Right-handed alpha
Helix 24	24	D	147	152	Right-handed alpha
Helix 25	25	D	159	163	Right-handed alpha
Helix 26	26	D	233	243	Right-handed alpha
Helix 27	27	D	244	247	Right-handed 310
Helix 28	28	D	254	256	Right-handed 310
Helix 29	29	D	264	269	Right-handed alpha

There are 17 sheets in PDB entry 4LDB. 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,

There are 4 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	54	55	first strand
Strand 2	A	173	185	parallel
Strand 3	A	71	83	anti-parallel
Strand 4	A	86	101	anti-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	119	125	first strand
Strand 2	A	132	138	anti-parallel
Strand 3	A	154	158	anti-parallel

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There are 3 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	216	217	first strand
Strand 2	A	203	208	anti-parallel
Strand 3	A	304	309	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	248	253	first strand
Strand 2	A	258	262	anti-parallel
Strand 3	A	284	288	anti-parallel

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There are 4 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	54	55	first strand
Strand 2	B	173	185	parallel
Strand 3	B	71	83	anti-parallel
Strand 4	B	86	101	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	B	119	125	first strand
Strand 2	B	132	138	anti-parallel
Strand 3	B	154	158	anti-parallel

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There are 3 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	216	217	first strand
Strand 2	B	203	208	anti-parallel
Strand 3	B	304	309	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	248	253	first strand
Strand 2	B	258	262	anti-parallel
Strand 3	B	284	288	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	C	54	55	first strand
Strand 2	C	173	185	parallel
Strand 3	C	71	83	anti-parallel
Strand 4	C	86	87	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	C	54	55	first strand
Strand 2	C	173	185	parallel
Strand 3	C	71	83	anti-parallel
Strand 4	C	92	101	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	119	125	first strand
Strand 2	C	132	138	anti-parallel
Strand 3	C	154	158	anti-parallel
Strand 4	C	319	320	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	216	217	first strand
Strand 2	C	204	208	anti-parallel
Strand 3	C	304	308	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	248	253	first strand
Strand 2	C	258	262	anti-parallel
Strand 3	C	284	288	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	D	54	55	first strand
Strand 2	D	173	185	parallel
Strand 3	D	71	82	anti-parallel
Strand 4	D	92	101	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	119	125	first strand
Strand 2	D	132	138	anti-parallel
Strand 3	D	154	158	anti-parallel
Strand 4	D	319	320	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	216	217	first strand
Strand 2	D	204	208	anti-parallel
Strand 3	D	304	308	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	248	253	first strand
Strand 2	D	258	262	anti-parallel
Strand 3	D	284	288	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: 4LDB

Analysis of interatomic Contacts of Structural Units in PDB entry:
4LDB