Analysis of interatomic Contacts of Structural Units in PDB entry:
3D5N

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 3D5N entry

There are 8 chains in PDB entry 3D5N (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MSE 1	LYS 178
B	ILE 3	ASP 176
D	MSE 1	LYS 178
E	MSE 1	LYS 178
F	MSE 1	GLU 179
G	MSE 1	ILE 175
H	MSE 1	LYS 178
I	MSE 1	ASP 180

There are 87 helices in PDB entry 3D5N. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	19	23	Right-handed 310
Helix 2	2	A	29	38	Right-handed alpha
Helix 3	3	A	50	55	Right-handed alpha
Helix 4	4	A	56	58	Right-handed 310
Helix 5	5	A	68	71	Right-handed 310
Helix 6	6	A	72	84	Right-handed alpha
Helix 7	7	A	101	111	Right-handed alpha
Helix 8	8	A	135	144	Right-handed alpha
Helix 9	9	A	150	155	Right-handed alpha
Helix 10	10	A	156	157	Right-handed 310
Helix 11	11	A	158	160	Right-handed 310
Helix 12	12	A	168	172	Right-handed 310
Helix 13	13	B	29	37	Right-handed alpha
Helix 14	14	B	50	55	Right-handed alpha
Helix 15	15	B	56	59	Right-handed 310
Helix 16	16	B	68	71	Right-handed 310
Helix 17	17	B	72	83	Right-handed alpha
Helix 18	18	B	101	111	Right-handed alpha
Helix 19	19	B	137	143	Right-handed alpha
Helix 20	20	B	149	156	Right-handed alpha
Helix 21	21	B	158	160	Right-handed 310
Helix 22	22	B	168	173	Right-handed 310
Helix 23	23	D	19	23	Right-handed 310
Helix 24	24	D	29	37	Right-handed alpha
Helix 25	25	D	50	55	Right-handed alpha
Helix 26	26	D	56	59	Right-handed 310
Helix 27	27	D	68	71	Right-handed 310
Helix 28	28	D	72	83	Right-handed alpha
Helix 29	29	D	101	110	Right-handed alpha
Helix 30	30	D	135	144	Right-handed alpha
Helix 31	31	D	150	155	Right-handed alpha
Helix 32	32	D	168	172	Right-handed 310
Helix 33	33	E	29	38	Right-handed alpha
Helix 34	34	E	50	55	Right-handed alpha
Helix 35	35	E	56	58	Right-handed 310
Helix 36	36	E	68	71	Right-handed 310
Helix 37	37	E	72	82	Right-handed alpha
Helix 38	38	E	101	111	Right-handed alpha
Helix 39	39	E	135	142	Right-handed alpha
Helix 40	40	E	150	155	Right-handed alpha
Helix 41	41	E	156	157	Right-handed 310
Helix 42	42	E	158	162	Right-handed 310
Helix 43	43	E	168	173	Right-handed 310
Helix 44	44	F	19	22	Right-handed 310
Helix 45	45	F	30	37	Right-handed alpha
Helix 46	46	F	50	55	Right-handed alpha
Helix 47	47	F	56	58	Right-handed 310
Helix 48	48	F	68	71	Right-handed 310
Helix 49	49	F	72	83	Right-handed alpha
Helix 50	50	F	101	111	Right-handed alpha
Helix 51	51	F	135	143	Right-handed alpha
Helix 52	52	F	150	157	Right-handed alpha
Helix 53	53	F	158	160	Right-handed 310
Helix 54	54	F	168	171	Right-handed 310
Helix 55	55	G	30	36	Right-handed alpha
Helix 56	56	G	37	39	Right-handed 310
Helix 57	57	G	50	55	Right-handed alpha
Helix 58	58	G	56	58	Right-handed 310
Helix 59	59	G	68	71	Right-handed 310
Helix 60	60	G	72	83	Right-handed alpha
Helix 61	61	G	101	111	Right-handed alpha
Helix 62	62	G	137	144	Right-handed alpha
Helix 63	63	G	149	155	Right-handed alpha
Helix 64	64	G	156	157	Right-handed 310
Helix 65	65	G	158	162	Right-handed 310
Helix 66	66	G	168	172	Right-handed 310
Helix 67	67	H	18	23	Right-handed alpha
Helix 68	68	H	29	38	Right-handed alpha
Helix 69	69	H	50	55	Right-handed alpha
Helix 70	70	H	56	59	Right-handed 310
Helix 71	71	H	68	71	Right-handed 310
Helix 72	72	H	72	83	Right-handed alpha
Helix 73	73	H	101	112	Right-handed alpha
Helix 74	74	H	137	142	Right-handed alpha
Helix 75	75	H	150	155	Right-handed alpha
Helix 76	76	H	156	157	Right-handed 310
Helix 77	77	H	158	162	Right-handed 310
Helix 78	78	H	168	173	Right-handed 310
Helix 79	79	I	29	38	Right-handed alpha
Helix 80	80	I	50	55	Right-handed alpha
Helix 81	81	I	56	59	Right-handed 310
Helix 82	82	I	72	83	Right-handed alpha
Helix 83	83	I	101	110	Right-handed alpha
Helix 84	84	I	135	142	Right-handed alpha
Helix 85	85	I	150	155	Right-handed alpha
Helix 86	86	I	158	162	Right-handed 310
Helix 87	87	I	168	171	Right-handed 310

There are 12 sheets in PDB entry 3D5N. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

There are 14 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	126	127	first strand
Strand 2	A	118	123	anti-parallel
Strand 3	A	131	134	anti-parallel
Strand 4	A	89	94	anti-parallel
Strand 5	A	3	8	parallel
Strand 6	A	45	47	parallel
Strand 7	A	63	65	parallel
Strand 8	B	63	65	anti-parallel
Strand 9	B	42	47	parallel
Strand 10	B	4	9	parallel
Strand 11	B	89	94	parallel
Strand 12	B	131	134	anti-parallel
Strand 13	B	118	123	anti-parallel
Strand 14	B	126	127	anti-parallel

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There are 14 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	162	166	first strand
Strand 2	A	118	123	parallel
Strand 3	A	131	134	anti-parallel
Strand 4	A	89	94	anti-parallel
Strand 5	A	3	8	parallel
Strand 6	A	45	47	parallel
Strand 7	A	63	65	parallel
Strand 8	B	63	65	anti-parallel
Strand 9	B	42	47	parallel
Strand 10	B	4	9	parallel
Strand 11	B	89	94	parallel
Strand 12	B	131	134	anti-parallel
Strand 13	B	118	123	anti-parallel
Strand 14	B	162	166	parallel

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There are 14 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	163	166	first strand
Strand 2	D	118	122	parallel
Strand 3	D	131	134	anti-parallel
Strand 4	D	89	94	anti-parallel
Strand 5	D	3	8	parallel
Strand 6	D	43	47	parallel
Strand 7	D	62	65	parallel
Strand 8	E	63	65	anti-parallel
Strand 9	E	43	47	parallel
Strand 10	E	3	9	parallel
Strand 11	E	89	94	parallel
Strand 12	E	131	134	anti-parallel
Strand 13	E	118	123	anti-parallel
Strand 14	E	126	127	anti-parallel

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There are 14 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	163	166	first strand
Strand 2	D	118	122	parallel
Strand 3	D	131	134	anti-parallel
Strand 4	D	89	94	anti-parallel
Strand 5	D	3	8	parallel
Strand 6	D	43	47	parallel
Strand 7	D	62	65	parallel
Strand 8	E	63	65	anti-parallel
Strand 9	E	43	47	parallel
Strand 10	E	3	9	parallel
Strand 11	E	89	94	parallel
Strand 12	E	131	134	anti-parallel
Strand 13	E	118	123	anti-parallel
Strand 14	E	163	166	parallel

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There are 14 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	126	127	first strand
Strand 2	F	118	123	anti-parallel
Strand 3	F	131	134	anti-parallel
Strand 4	F	89	94	anti-parallel
Strand 5	F	3	8	parallel
Strand 6	F	43	47	parallel
Strand 7	F	62	65	parallel
Strand 8	G	63	65	anti-parallel
Strand 9	G	42	47	parallel
Strand 10	G	3	9	parallel
Strand 11	G	89	94	parallel
Strand 12	G	131	134	anti-parallel
Strand 13	G	118	123	anti-parallel
Strand 14	G	126	127	anti-parallel

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There are 14 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	162	166	first strand
Strand 2	F	118	123	parallel
Strand 3	F	131	134	anti-parallel
Strand 4	F	89	94	anti-parallel
Strand 5	F	3	8	parallel
Strand 6	F	43	47	parallel
Strand 7	F	62	65	parallel
Strand 8	G	63	65	anti-parallel
Strand 9	G	42	47	parallel
Strand 10	G	3	9	parallel
Strand 11	G	89	94	parallel
Strand 12	G	131	134	anti-parallel
Strand 13	G	118	123	anti-parallel
Strand 14	G	163	166	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	F	24	25	first strand
Strand 2	F	28	29	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	F	173	177	first strand
Strand 2	I	173	177	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	24	25	first strand
Strand 2	G	28	29	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	126	127	first strand
Strand 2	H	118	123	anti-parallel
Strand 3	H	163	166	parallel

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There are 13 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	126	127	first strand
Strand 2	H	118	123	anti-parallel
Strand 3	H	131	134	anti-parallel
Strand 4	H	89	94	anti-parallel
Strand 5	H	3	9	parallel
Strand 6	H	42	47	parallel
Strand 7	H	63	65	parallel
Strand 8	I	63	65	anti-parallel
Strand 9	I	42	47	parallel
Strand 10	I	3	8	parallel
Strand 11	I	89	94	parallel
Strand 12	I	131	134	anti-parallel
Strand 13	I	118	119	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	I	126	127	first strand
Strand 2	I	121	123	anti-parallel
Strand 3	I	165	166	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: 3D5N

Analysis of interatomic Contacts of Structural Units in PDB entry:
3D5N