Analysis of interatomic Contacts of Structural Units in PDB entry:
5LDD

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 5LDD entry

There are 6 chains in PDB entry 5LDD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 199	SER 353
B	ILE 12	HIS 247
C	LYS 5	GLN 178
D	ASP 211	SER 353
E	ILE 13	HIS 247
F	LYS 6	GLN 178

There are 36 helices in PDB entry 5LDD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	210	221	Right-handed alpha
Helix 2	AA2	A	241	262	Right-handed alpha
Helix 3	AA3	A	295	326	Right-handed alpha
Helix 4	AA4	A	338	353	Right-handed alpha
Helix 5	AA5	B	25	28	Right-handed 310
Helix 6	AA6	B	30	36	Right-handed 310
Helix 7	AA7	B	94	117	Right-handed alpha
Helix 8	AA8	B	192	210	Right-handed alpha
Helix 9	AA9	B	214	242	Right-handed alpha
Helix 10	AB1	C	20	29	Right-handed alpha
Helix 11	AB2	C	30	34	Right-handed 310
Helix 12	AB3	C	37	42	Right-handed alpha
Helix 13	AB4	C	67	72	Right-handed 310
Helix 14	AB5	C	73	79	Right-handed alpha
Helix 15	AB6	C	92	111	Right-handed alpha
Helix 16	AB7	C	114	118	Right-handed 310
Helix 17	AB8	C	137	148	Right-handed alpha
Helix 18	AB9	C	163	178	Right-handed alpha
Helix 19	AC1	D	212	221	Right-handed alpha
Helix 20	AC2	D	241	262	Right-handed alpha
Helix 21	AC3	D	295	326	Right-handed alpha
Helix 22	AC4	D	338	353	Right-handed alpha
Helix 23	AC5	E	25	28	Right-handed 310
Helix 24	AC6	E	30	36	Right-handed 310
Helix 25	AC7	E	94	117	Right-handed alpha
Helix 26	AC8	E	192	210	Right-handed alpha
Helix 27	AC9	E	214	242	Right-handed alpha
Helix 28	AD1	F	20	29	Right-handed alpha
Helix 29	AD2	F	30	34	Right-handed 310
Helix 30	AD3	F	37	42	Right-handed alpha
Helix 31	AD4	F	67	72	Right-handed 310
Helix 32	AD5	F	73	79	Right-handed alpha
Helix 33	AD6	F	92	98	Right-handed alpha
Helix 34	AD7	F	98	111	Right-handed alpha
Helix 35	AD8	F	137	148	Right-handed alpha
Helix 36	AD9	F	164	177	Right-handed alpha

There are 6 sheets in PDB entry 5LDD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 10 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	234	237	first strand
Strand 2	A	223	229	anti-parallel
Strand 3	A	284	290	anti-parallel
Strand 4	A	274	281	anti-parallel
Strand 5	A	266	271	anti-parallel
Strand 6	B	124	129	anti-parallel
Strand 7	B	132	140	anti-parallel
Strand 8	B	143	150	anti-parallel
Strand 9	B	16	23	anti-parallel
Strand 10	B	38	43	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	152	154	first strand
Strand 2	B	184	186	anti-parallel

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There are 7 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	35	36	first strand
Strand 2	C	43	52	anti-parallel
Strand 3	C	55	64	anti-parallel
Strand 4	C	7	15	parallel
Strand 5	C	83	89	parallel
Strand 6	C	120	126	parallel
Strand 7	C	153	157	parallel

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There are 10 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	234	237	first strand
Strand 2	D	223	229	anti-parallel
Strand 3	D	284	290	anti-parallel
Strand 4	D	274	281	anti-parallel
Strand 5	D	266	271	anti-parallel
Strand 6	E	126	129	anti-parallel
Strand 7	E	132	140	anti-parallel
Strand 8	E	143	150	anti-parallel
Strand 9	E	16	23	anti-parallel
Strand 10	E	38	43	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	152	154	first strand
Strand 2	E	184	186	anti-parallel

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There are 7 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	35	36	first strand
Strand 2	F	43	50	anti-parallel
Strand 3	F	57	64	anti-parallel
Strand 4	F	7	15	parallel
Strand 5	F	83	89	parallel
Strand 6	F	120	125	parallel
Strand 7	F	153	156	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: 5LDD

Analysis of interatomic Contacts of Structural Units in PDB entry:
5LDD