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

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 1RTD entry

There are 8 chains in PDB entry 1RTD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
E	G 3	T 27
F	C 2	G 22
G	G 3	T 27
H	C 2	G 22
A	LYS 1	ALA 554
B	SER 3	LEU 429
C	LYS 1	ALA 554
D	SER 3	LEU 429

There are 55 helices in PDB entry 1RTD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	28	43	Right-handed alpha
Helix 2	2	A	80	83	Right-handed alpha
Helix 3	3	A	97	99	Right-handed 310
Helix 4	4	A	124	128	Right-handed 310
Helix 5	5	A	156	173	Right-handed alpha
Helix 6	6	A	195	211	Right-handed alpha
Helix 7	7	A	254	269	Right-handed alpha
Helix 8	8	A	277	283	Right-handed alpha
Helix 9	9	A	297	310	Right-handed alpha
Helix 10	10	A	364	383	Right-handed alpha
Helix 11	11	A	395	404	Right-handed alpha
Helix 12	12	A	474	487	Right-handed alpha
Helix 13	13	A	500	508	Right-handed alpha
Helix 14	14	A	516	527	Right-handed alpha
Helix 15	15	A	545	551	Right-handed alpha
Helix 16	16	B	28	43	Right-handed alpha
Helix 17	17	B	78	89	Right-handed alpha
Helix 18	18	B	111	117	Right-handed 310
Helix 19	19	B	122	128	Right-handed alpha
Helix 20	20	B	135	137	Right-handed 310
Helix 21	21	B	156	173	Right-handed alpha
Helix 22	22	B	195	212	Right-handed alpha
Helix 23	23	B	236	238	Right-handed 310
Helix 24	24	B	254	269	Right-handed alpha
Helix 25	25	B	277	281	Right-handed alpha
Helix 26	26	B	297	309	Right-handed alpha
Helix 27	27	B	364	383	Right-handed alpha
Helix 28	28	B	395	404	Right-handed alpha
Helix 29	29	C	28	43	Right-handed alpha
Helix 30	30	C	80	83	Right-handed alpha
Helix 31	31	C	124	128	Right-handed 310
Helix 32	32	C	156	174	Right-handed alpha
Helix 33	33	C	195	211	Right-handed alpha
Helix 34	34	C	254	269	Right-handed alpha
Helix 35	35	C	277	283	Right-handed alpha
Helix 36	36	C	297	310	Right-handed alpha
Helix 37	37	C	364	383	Right-handed alpha
Helix 38	38	C	395	404	Right-handed alpha
Helix 39	39	C	474	487	Right-handed alpha
Helix 40	40	C	500	508	Right-handed alpha
Helix 41	41	C	516	527	Right-handed alpha
Helix 42	42	C	545	551	Right-handed alpha
Helix 43	43	D	28	43	Right-handed alpha
Helix 44	44	D	77	89	Right-handed 310
Helix 45	45	D	111	117	Right-handed 310
Helix 46	46	D	122	128	Right-handed alpha
Helix 47	47	D	135	137	Right-handed 310
Helix 48	48	D	155	173	Right-handed alpha
Helix 49	49	D	195	212	Right-handed alpha
Helix 50	50	D	236	238	Right-handed 310
Helix 51	51	D	254	269	Right-handed alpha
Helix 52	52	D	277	281	Right-handed alpha
Helix 53	53	D	297	309	Right-handed alpha
Helix 54	54	D	364	383	Right-handed alpha
Helix 55	55	D	395	404	Right-handed alpha

There are 18 sheets in PDB entry 1RTD. 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,

There are 2 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	60	64	first strand
Strand 2	A	71	75	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	105	110	first strand
Strand 2	A	186	191	anti-parallel
Strand 3	A	179	183	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	227	229	first strand
Strand 2	A	232	234	anti-parallel
Strand 3	A	239	241	anti-parallel

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There are 5 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	414	416	first strand
Strand 2	A	388	391	parallel
Strand 3	A	326	331	parallel
Strand 4	A	337	342	anti-parallel
Strand 5	A	348	354	anti-parallel

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There are 5 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	464	469	first strand
Strand 2	A	453	459	anti-parallel
Strand 3	A	438	446	anti-parallel
Strand 4	A	492	497	parallel
Strand 5	A	530	535	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	47	49	first strand
Strand 2	B	142	146	anti-parallel
Strand 3	B	130	132	anti-parallel

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There are 2 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	60	64	first strand
Strand 2	B	71	75	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	105	110	first strand
Strand 2	B	186	191	anti-parallel
Strand 3	B	179	183	anti-parallel

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There are 5 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	414	416	first strand
Strand 2	B	388	391	parallel
Strand 3	B	326	333	parallel
Strand 4	B	336	342	anti-parallel
Strand 5	B	348	352	anti-parallel

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There are 2 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	60	64	first strand
Strand 2	C	71	75	anti-parallel

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There are 3 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	105	110	first strand
Strand 2	C	186	191	anti-parallel
Strand 3	C	179	183	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	227	229	first strand
Strand 2	C	232	234	anti-parallel
Strand 3	C	239	241	anti-parallel

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There are 5 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	414	416	first strand
Strand 2	C	388	391	parallel
Strand 3	C	326	331	parallel
Strand 4	C	337	342	anti-parallel
Strand 5	C	348	354	anti-parallel

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There are 5 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	464	469	first strand
Strand 2	C	453	459	anti-parallel
Strand 3	C	438	446	anti-parallel
Strand 4	C	492	497	parallel
Strand 5	C	530	535	parallel

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There are 3 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	47	49	first strand
Strand 2	D	142	146	anti-parallel
Strand 3	D	129	132	anti-parallel

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There are 2 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	60	64	first strand
Strand 2	D	71	75	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	105	110	first strand
Strand 2	D	186	191	anti-parallel
Strand 3	D	179	183	anti-parallel

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There are 5 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	414	416	first strand
Strand 2	D	388	391	parallel
Strand 3	D	326	333	parallel
Strand 4	D	336	342	anti-parallel
Strand 5	D	348	352	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: 1RTD

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