Analysis of interatomic Contacts of Structural Units in PDB entry:
3J16

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 3J16 entry

There are 12 chains in PDB entry 3J16 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	GLU 386
B	MET 1	ILE 608
J	C 36	U 1769
K	C 1227	C 3039
L	U 1	A 75
F	MET 1	LEU 191
E	SER 7	SER 61
G	MET 1	SER 199
C	MET 1	ILE 226
H	PRO 7	ASP 144
I	SER 2	VAL 137
D	SER 2	ASP 135

There are 66 helices in PDB entry 3J16. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	24	33	Right-handed alpha
Helix 2	2	A	123	129	Right-handed alpha
Helix 3	3	A	182	203	Right-handed alpha
Helix 4	4	A	218	235	Right-handed alpha
Helix 5	5	A	236	241	Right-handed alpha
Helix 6	6	A	257	265	Right-handed alpha
Helix 7	7	A	278	293	Right-handed alpha
Helix 8	8	A	301	311	Right-handed alpha
Helix 9	9	A	321	326	Right-handed alpha
Helix 10	10	A	331	344	Right-handed alpha
Helix 11	11	A	356	364	Right-handed alpha
Helix 12	12	B	17	22	Right-handed alpha
Helix 13	13	B	23	29	Right-handed alpha
Helix 14	14	B	29	35	Right-handed alpha
Helix 15	15	B	59	65	Right-handed alpha
Helix 16	16	B	115	125	Right-handed alpha
Helix 17	17	B	139	147	Right-handed alpha
Helix 18	18	B	151	162	Right-handed alpha
Helix 19	19	B	175	180	Right-handed alpha
Helix 20	20	B	185	195	Right-handed alpha
Helix 21	21	B	198	210	Right-handed alpha
Helix 22	22	B	212	217	Right-handed 310
Helix 23	23	B	223	238	Right-handed alpha
Helix 24	24	B	253	266	Right-handed alpha
Helix 25	25	B	267	269	Right-handed 310
Helix 26	26	B	280	288	Right-handed alpha
Helix 27	27	B	310	320	Right-handed alpha
Helix 28	28	B	390	400	Right-handed alpha
Helix 29	29	B	429	438	Right-handed alpha
Helix 30	30	B	444	451	Right-handed alpha
Helix 31	31	B	451	456	Right-handed alpha
Helix 32	32	B	469	482	Right-handed alpha
Helix 33	33	B	499	518	Right-handed alpha
Helix 34	34	B	527	535	Right-handed alpha
Helix 35	35	B	557	569	Right-handed alpha
Helix 36	36	B	589	596	Right-handed alpha
Helix 37	37	F	61	84	Right-handed alpha
Helix 38	38	F	116	120	Right-handed 310
Helix 39	39	F	150	164	Right-handed alpha
Helix 40	40	E	12	18	Right-handed alpha
Helix 41	41	E	32	45	Right-handed alpha
Helix 42	42	G	9	22	Right-handed alpha
Helix 43	43	G	34	49	Right-handed alpha
Helix 44	44	G	60	68	Right-handed alpha
Helix 45	45	G	92	103	Right-handed alpha
Helix 46	46	G	133	139	Right-handed alpha
Helix 47	47	G	166	177	Right-handed alpha
Helix 48	48	C	20	25	Right-handed alpha
Helix 49	49	C	26	28	Right-handed 310
Helix 50	50	C	39	42	Right-handed 310
Helix 51	51	C	59	61	Right-handed 310
Helix 52	52	C	121	126	Right-handed alpha
Helix 53	53	C	137	146	Right-handed alpha
Helix 54	54	C	180	226	Right-handed alpha
Helix 55	55	H	49	54	Right-handed alpha
Helix 56	56	H	78	83	Right-handed alpha
Helix 57	57	H	127	136	Right-handed alpha
Helix 58	58	I	119	124	Right-handed alpha
Helix 59	59	I	126	132	Right-handed alpha
Helix 60	60	D	16	18	Right-handed 310
Helix 61	61	D	36	46	Right-handed alpha
Helix 62	62	D	51	53	Right-handed 310
Helix 63	63	D	78	86	Right-handed alpha
Helix 64	64	D	87	95	Right-handed alpha
Helix 65	65	D	104	117	Right-handed alpha
Helix 66	66	D	122	133	Right-handed alpha

There are 25 sheets in PDB entry 3J16. 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, T, U, V, W, X, Y,

There are 7 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	2	7	first strand
Strand 2	A	16	21	anti-parallel
Strand 3	A	115	119	anti-parallel
Strand 4	A	40	42	anti-parallel
Strand 5	A	66	75	anti-parallel
Strand 6	A	80	87	anti-parallel
Strand 7	A	107	108	anti-parallel

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There are 4 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	152	154	first strand
Strand 2	A	144	147	anti-parallel
Strand 3	A	211	214	parallel
Strand 4	A	246	248	parallel

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There are 4 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	298	300	first strand
Strand 2	A	369	371	anti-parallel
Strand 3	A	317	320	anti-parallel
Strand 4	A	349	352	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	6	11	first strand
Strand 2	B	70	75	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	39	41	first strand
Strand 2	B	48	50	anti-parallel

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There are 8 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	83	86	first strand
Strand 2	B	93	95	anti-parallel
Strand 3	B	301	304	parallel
Strand 4	B	290	295	anti-parallel
Strand 5	B	105	109	parallel
Strand 6	B	273	277	parallel
Strand 7	B	242	246	parallel
Strand 8	B	167	169	parallel

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There are 5 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	83	86	first strand
Strand 2	B	93	95	anti-parallel
Strand 3	B	301	304	parallel
Strand 4	B	290	295	anti-parallel
Strand 5	B	308	309	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	321	322	first strand
Strand 2	B	327	328	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	B	355	356	first strand
Strand 2	B	373	374	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	359	362	first strand
Strand 2	B	367	370	anti-parallel
Strand 3	B	548	550	parallel
Strand 4	B	542	544	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	415	418	first strand
Strand 2	B	488	491	parallel
Strand 3	B	520	524	parallel
Strand 4	B	380	384	parallel
Strand 5	B	537	540	parallel
Strand 6	B	555	556	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	F	3	11	first strand
Strand 2	F	52	60	anti-parallel
Strand 3	F	44	49	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	17	21	first strand
Strand 2	F	24	29	anti-parallel
Strand 3	F	32	37	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	132	136	first strand
Strand 2	F	143	148	anti-parallel
Strand 3	F	86	93	anti-parallel
Strand 4	F	178	186	anti-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	F	100	104	first strand
Strand 2	F	111	115	anti-parallel
Strand 3	F	124	127	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	51	52	first strand
Strand 2	G	84	89	anti-parallel
Strand 3	G	24	29	anti-parallel
Strand 4	G	186	192	anti-parallel
Strand 5	G	195	197	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	G	119	121	first strand
Strand 2	G	156	159	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	124	125	first strand
Strand 2	G	149	152	anti-parallel
Strand 3	G	143	146	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	C	12	17	first strand
Strand 2	C	2	7	anti-parallel
Strand 3	C	106	115	parallel
Strand 4	C	49	57	anti-parallel
Strand 5	C	35	37	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	72	77	first strand
Strand 2	C	93	98	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	160	163	first strand
Strand 2	C	168	171	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	17	18	first strand
Strand 2	I	51	52	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	22	25	first strand
Strand 2	I	33	39	anti-parallel
Strand 3	I	57	61	anti-parallel
Strand 4	I	74	80	anti-parallel
Strand 5	I	99	102	anti-parallel
Strand 6	I	22	25	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	85	86	first strand
Strand 2	I	92	93	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	7	15	first strand
Strand 2	D	20	28	anti-parallel
Strand 3	D	68	76	anti-parallel
Strand 4	D	55	62	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: 3J16

Analysis of interatomic Contacts of Structural Units in PDB entry:
3J16