Analysis of interatomic Contacts of Structural Units in PDB entry:
2D4E

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 2D4E entry

There are 4 chains in PDB entry 2D4E (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	TYR 3	LYS 515
B	TYR 3	LYS 515
C	MET 1	LYS 515
D	MET 1	LYS 515

There are 81 helices in PDB entry 2D4E. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	11	25	Right-handed alpha
Helix 2	2	A	62	83	Right-handed alpha
Helix 3	3	A	84	102	Right-handed alpha
Helix 4	4	A	102	115	Right-handed alpha
Helix 5	5	A	117	137	Right-handed alpha
Helix 6	6	A	138	142	Right-handed 310
Helix 7	7	A	174	189	Right-handed alpha
Helix 8	8	A	202	215	Right-handed alpha
Helix 9	9	A	231	239	Right-handed alpha
Helix 10	10	A	250	262	Right-handed alpha
Helix 11	11	A	263	265	Right-handed 310
Helix 12	12	A	285	299	Right-handed alpha
Helix 13	13	A	300	303	Right-handed 310
Helix 14	14	A	315	332	Right-handed alpha
Helix 15	15	A	349	366	Right-handed alpha
Helix 16	16	A	403	408	Right-handed alpha
Helix 17	17	A	422	432	Right-handed alpha
Helix 18	18	A	445	456	Right-handed alpha
Helix 19	19	A	478	482	Right-handed 310
Helix 20	20	A	487	495	Right-handed alpha
Helix 21	21	B	11	25	Right-handed alpha
Helix 22	22	B	62	83	Right-handed alpha
Helix 23	23	B	84	102	Right-handed alpha
Helix 24	24	B	102	115	Right-handed alpha
Helix 25	25	B	117	137	Right-handed alpha
Helix 26	26	B	138	142	Right-handed 310
Helix 27	27	B	174	189	Right-handed alpha
Helix 28	28	B	202	215	Right-handed alpha
Helix 29	29	B	231	239	Right-handed alpha
Helix 30	30	B	250	262	Right-handed alpha
Helix 31	31	B	263	265	Right-handed 310
Helix 32	32	B	285	299	Right-handed alpha
Helix 33	33	B	300	303	Right-handed 310
Helix 34	34	B	315	331	Right-handed alpha
Helix 35	35	B	349	366	Right-handed alpha
Helix 36	36	B	403	408	Right-handed alpha
Helix 37	37	B	422	432	Right-handed alpha
Helix 38	38	B	445	456	Right-handed alpha
Helix 39	39	B	478	482	Right-handed 310
Helix 40	40	B	487	495	Right-handed alpha
Helix 41	41	C	12	25	Right-handed alpha
Helix 42	42	C	62	81	Right-handed alpha
Helix 43	43	C	84	102	Right-handed alpha
Helix 44	44	C	102	115	Right-handed alpha
Helix 45	45	C	117	137	Right-handed alpha
Helix 46	46	C	138	142	Right-handed 310
Helix 47	47	C	174	189	Right-handed alpha
Helix 48	48	C	202	215	Right-handed alpha
Helix 49	49	C	231	239	Right-handed alpha
Helix 50	50	C	250	262	Right-handed alpha
Helix 51	51	C	263	265	Right-handed 310
Helix 52	52	C	285	299	Right-handed alpha
Helix 53	53	C	300	303	Right-handed 310
Helix 54	54	C	315	332	Right-handed alpha
Helix 55	55	C	349	366	Right-handed alpha
Helix 56	56	C	403	408	Right-handed alpha
Helix 57	57	C	422	432	Right-handed alpha
Helix 58	58	C	445	456	Right-handed alpha
Helix 59	59	C	478	482	Right-handed 310
Helix 60	60	C	487	495	Right-handed alpha
Helix 61	61	D	12	25	Right-handed alpha
Helix 62	62	D	62	81	Right-handed alpha
Helix 63	63	D	84	102	Right-handed alpha
Helix 64	64	D	102	115	Right-handed alpha
Helix 65	65	D	117	137	Right-handed alpha
Helix 66	66	D	138	142	Right-handed 310
Helix 67	67	D	174	189	Right-handed alpha
Helix 68	68	D	202	215	Right-handed alpha
Helix 69	69	D	231	239	Right-handed alpha
Helix 70	70	D	250	262	Right-handed alpha
Helix 71	71	D	263	265	Right-handed 310
Helix 72	72	D	285	299	Right-handed alpha
Helix 73	73	D	300	303	Right-handed 310
Helix 74	74	D	315	332	Right-handed alpha
Helix 75	75	D	349	366	Right-handed alpha
Helix 76	76	D	403	408	Right-handed alpha
Helix 77	77	D	422	432	Right-handed alpha
Helix 78	78	D	445	456	Right-handed alpha
Helix 79	79	D	478	482	Right-handed 310
Helix 80	80	D	487	490	Right-handed 310
Helix 81	81	D	491	495	Right-handed alpha

There are 19 sheets in PDB entry 2D4E. 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,

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	29	31	first strand
Strand 2	A	34	36	anti-parallel

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There are 2 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	43	47	first strand
Strand 2	A	54	59	anti-parallel

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There are 2 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	145	147	first strand
Strand 2	C	145	147	anti-parallel

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There are 9 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	154	162	first strand
Strand 2	A	496	504	anti-parallel
Strand 3	B	460	463	parallel
Strand 4	B	438	442	parallel
Strand 5	B	277	280	parallel
Strand 6	B	310	314	parallel
Strand 7	B	414	420	parallel
Strand 8	B	395	398	parallel
Strand 9	B	369	372	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	222	224	first strand
Strand 2	A	193	196	parallel
Strand 3	A	166	169	parallel
Strand 4	A	244	248	parallel
Strand 5	A	267	271	parallel

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There are 11 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	369	372	first strand
Strand 2	A	395	398	anti-parallel
Strand 3	A	414	420	parallel
Strand 4	A	310	314	parallel
Strand 5	A	277	280	parallel
Strand 6	A	438	442	parallel
Strand 7	A	460	463	parallel
Strand 8	B	496	504	parallel
Strand 9	B	154	162	anti-parallel
Strand 10	B	146	150	anti-parallel
Strand 11	D	145	146	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	29	31	first strand
Strand 2	B	34	36	anti-parallel

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There are 2 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	43	47	first strand
Strand 2	B	54	59	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	222	224	first strand
Strand 2	B	193	196	parallel
Strand 3	B	166	169	parallel
Strand 4	B	244	248	parallel
Strand 5	B	267	271	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	6	7	first strand
Strand 2	C	10	11	anti-parallel

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There are 2 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	29	31	first strand
Strand 2	C	34	36	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	C	43	47	first strand
Strand 2	C	54	59	anti-parallel

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There are 9 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	154	162	first strand
Strand 2	C	496	504	anti-parallel
Strand 3	D	460	463	parallel
Strand 4	D	438	442	parallel
Strand 5	D	277	280	parallel
Strand 6	D	310	314	parallel
Strand 7	D	414	420	parallel
Strand 8	D	395	398	parallel
Strand 9	D	369	372	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	222	224	first strand
Strand 2	C	193	196	parallel
Strand 3	C	166	169	parallel
Strand 4	C	244	248	parallel
Strand 5	C	267	271	parallel

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There are 9 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	369	372	first strand
Strand 2	C	395	398	anti-parallel
Strand 3	C	414	420	parallel
Strand 4	C	310	314	parallel
Strand 5	C	277	280	parallel
Strand 6	C	438	442	parallel
Strand 7	C	460	463	parallel
Strand 8	D	496	504	parallel
Strand 9	D	154	162	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	6	7	first strand
Strand 2	D	10	11	anti-parallel

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There are 2 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	29	31	first strand
Strand 2	D	34	36	anti-parallel

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There are 2 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	43	47	first strand
Strand 2	D	54	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	222	224	first strand
Strand 2	D	193	196	parallel
Strand 3	D	166	169	parallel
Strand 4	D	244	248	parallel
Strand 5	D	267	271	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: 2D4E

Analysis of interatomic Contacts of Structural Units in PDB entry:
2D4E