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

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 5LDN entry

There are 3 chains in PDB entry 5LDN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 7	ALA 946
L	ASN 21	GLU 233
H	VAL 1	CYS 218

There are 29 helices in PDB entry 5LDN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	18	23	Right-handed alpha
Helix 2	AA2	A	24	35	Right-handed alpha
Helix 3	AA3	A	40	44	Right-handed 310
Helix 4	AA4	A	96	98	Right-handed 310
Helix 5	AA5	A	311	316	Right-handed 310
Helix 6	AA6	A	330	333	Right-handed 310
Helix 7	AA7	A	340	344	Right-handed 310
Helix 8	AA8	A	364	377	Right-handed alpha
Helix 9	AA9	A	383	387	Right-handed 310
Helix 10	AB1	A	394	399	Right-handed alpha
Helix 11	AB2	A	462	476	Right-handed alpha
Helix 12	AB3	A	477	480	Right-handed 310
Helix 13	AB4	A	481	485	Right-handed 310
Helix 14	AB5	A	499	506	Right-handed alpha
Helix 15	AB6	A	509	514	Right-handed 310
Helix 16	AB7	A	525	530	Right-handed alpha
Helix 17	AB8	A	539	550	Right-handed alpha
Helix 18	AB9	A	587	591	Right-handed alpha
Helix 19	AC1	A	622	634	Right-handed alpha
Helix 20	AC2	A	635	639	Right-handed 310
Helix 21	AC3	A	685	687	Right-handed 310
Helix 22	AC4	A	704	709	Right-handed alpha
Helix 23	AC5	A	713	715	Right-handed 310
Helix 24	AC6	A	761	774	Right-handed alpha
Helix 25	AC7	A	784	788	Right-handed 310
Helix 26	AC8	A	792	796	Right-handed alpha
Helix 27	AC9	A	890	895	Right-handed alpha
Helix 28	AD1	L	99	103	Right-handed 310
Helix 29	AD2	H	60	64	Right-handed 310

There are 29 sheets in PDB entry 5LDN. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2,

There are 4 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	64	67	first strand
Strand 2	A	606	617	anti-parallel
Strand 3	A	99	107	anti-parallel
Strand 4	A	554	561	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	71	74	first strand
Strand 2	A	78	87	anti-parallel
Strand 3	A	576	585	anti-parallel
Strand 4	A	346	349	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	93	94	first strand
Strand 2	A	572	573	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	132	136	first strand
Strand 2	A	164	168	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	173	174	first strand
Strand 2	A	218	223	anti-parallel
Strand 3	A	283	288	parallel
Strand 4	A	262	266	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	178	179	first strand
Strand 2	A	182	186	anti-parallel
Strand 3	A	193	194	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	236	237	first strand
Strand 2	A	292	293	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	297	301	first strand
Strand 2	A	317	320	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	326	328	first strand
Strand 2	A	592	594	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	400	401	first strand
Strand 2	A	522	523	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	411	413	first strand
Strand 2	A	459	461	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	423	425	first strand
Strand 2	A	449	451	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	428	430	first strand
Strand 2	A	438	440	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	640	643	first strand
Strand 2	A	922	928	anti-parallel
Strand 3	A	936	942	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	648	655	first strand
Strand 2	A	913	920	anti-parallel
Strand 3	A	676	683	anti-parallel
Strand 4	A	870	873	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	661	669	first strand
Strand 2	A	898	906	anti-parallel
Strand 3	A	717	724	anti-parallel
Strand 4	A	728	730	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	661	669	first strand
Strand 2	A	898	906	anti-parallel
Strand 3	A	717	724	anti-parallel
Strand 4	A	742	743	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	797	805	first strand
Strand 2	A	857	865	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	24	27	first strand
Strand 2	L	39	45	anti-parallel
Strand 3	L	90	95	anti-parallel
Strand 4	L	82	87	anti-parallel

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There are 6 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	30	31	first strand
Strand 2	L	122	124	parallel
Strand 3	L	105	110	anti-parallel
Strand 4	L	53	58	anti-parallel
Strand 5	L	65	69	anti-parallel
Strand 6	L	73	74	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	30	31	first strand
Strand 2	L	122	124	parallel
Strand 3	L	105	110	anti-parallel
Strand 4	L	117	118	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	134	137	first strand
Strand 2	L	149	157	anti-parallel
Strand 3	L	196	202	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	168	169	first strand
Strand 2	L	211	214	anti-parallel
Strand 3	L	229	230	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	4	first strand
Strand 2	H	20	23	anti-parallel
Strand 3	H	76	81	anti-parallel
Strand 4	H	66	71	anti-parallel

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There are 6 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	11	first strand
Strand 2	H	111	114	parallel
Strand 3	H	90	97	anti-parallel
Strand 4	H	33	38	anti-parallel
Strand 5	H	44	50	anti-parallel
Strand 6	H	57	58	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	11	first strand
Strand 2	H	111	114	parallel
Strand 3	H	90	97	anti-parallel
Strand 4	H	103	106	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	123	127	first strand
Strand 2	H	138	148	anti-parallel
Strand 3	H	182	187	anti-parallel
Strand 4	H	166	168	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	123	127	first strand
Strand 2	H	138	148	anti-parallel
Strand 3	H	178	180	anti-parallel
Strand 4	H	172	173	anti-parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	154	157	first strand
Strand 2	H	198	201	anti-parallel
Strand 3	H	210	211	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: 5LDN

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