Analysis of interatomic Contacts of Structural Units in PDB entry:
3J40

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 3J40 entry

There are 14 chains in PDB entry 3J40 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
N	MET 1	ASP 111
M	MET 1	ASP 111
A	MET 1	ALA 335
H	MET 1	ASP 111
F	MET 1	ALA 335
B	MET 1	ALA 335
G	MET 1	ALA 335
D	MET 1	ALA 335
K	MET 1	ASP 111
C	MET 1	ALA 335
E	MET 1	ALA 335
I	MET 1	ASP 111
J	MET 1	ASP 111
L	MET 1	ASP 111

There are 46 helices in PDB entry 3J40. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	10	18	Right-handed alpha
Helix 2	2	A	98	102	Right-handed 310
Helix 3	3	A	106	131	Right-handed alpha
Helix 4	4	A	154	158	Right-handed 310
Helix 5	5	A	243	250	Right-handed alpha
Helix 6	6	A	259	267	Right-handed alpha
Helix 7	7	A	285	296	Right-handed alpha
Helix 8	8	F	10	17	Right-handed alpha
Helix 9	9	F	98	102	Right-handed 310
Helix 10	10	F	106	130	Right-handed alpha
Helix 11	11	F	141	145	Right-handed 310
Helix 12	12	F	245	250	Right-handed alpha
Helix 13	13	F	259	266	Right-handed alpha
Helix 14	14	F	285	295	Right-handed alpha
Helix 15	15	B	11	17	Right-handed alpha
Helix 16	16	B	98	102	Right-handed 310
Helix 17	17	B	105	131	Right-handed alpha
Helix 18	18	B	243	249	Right-handed alpha
Helix 19	19	B	259	267	Right-handed alpha
Helix 20	20	B	284	295	Right-handed alpha
Helix 21	21	G	106	129	Right-handed alpha
Helix 22	22	G	154	158	Right-handed 310
Helix 23	23	G	243	249	Right-handed alpha
Helix 24	24	G	259	265	Right-handed alpha
Helix 25	25	G	284	296	Right-handed alpha
Helix 26	26	D	10	17	Right-handed alpha
Helix 27	27	D	96	101	Right-handed alpha
Helix 28	28	D	106	129	Right-handed alpha
Helix 29	29	D	154	158	Right-handed 310
Helix 30	30	D	259	267	Right-handed alpha
Helix 31	31	D	284	295	Right-handed alpha
Helix 32	32	C	11	18	Right-handed alpha
Helix 33	33	C	98	102	Right-handed 310
Helix 34	34	C	106	129	Right-handed alpha
Helix 35	35	C	148	152	Right-handed 310
Helix 36	36	C	243	249	Right-handed alpha
Helix 37	37	C	259	266	Right-handed alpha
Helix 38	38	C	285	295	Right-handed alpha
Helix 39	39	E	11	17	Right-handed alpha
Helix 40	40	E	105	130	Right-handed alpha
Helix 41	41	E	141	145	Right-handed 310
Helix 42	42	E	154	158	Right-handed 310
Helix 43	43	E	243	249	Right-handed alpha
Helix 44	44	E	259	264	Right-handed alpha
Helix 45	45	E	265	268	Right-handed 310
Helix 46	46	E	284	295	Right-handed alpha

There are 28 sheets in PDB entry 3J40. 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, Z, AA, AB,

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	M	54	55	first strand
Strand 2	M	60	61	anti-parallel

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There are 5 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	45	first strand
Strand 2	A	184	186	parallel
Strand 3	A	223	228	anti-parallel
Strand 4	A	87	90	anti-parallel
Strand 5	F	64	65	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	176	178	first strand
Strand 2	A	279	282	anti-parallel
Strand 3	A	320	322	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	F	43	44	first strand
Strand 2	F	184	185	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	F	57	58	first strand
Strand 2	F	78	79	anti-parallel

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There are 2 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	87	89	first strand
Strand 2	F	224	226	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	F	93	94	first strand
Strand 2	F	219	220	anti-parallel

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There are 4 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	237	240	first strand
Strand 2	F	174	177	anti-parallel
Strand 3	F	280	282	anti-parallel
Strand 4	F	320	322	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	43	46	first strand
Strand 2	B	184	187	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	B	87	90	first strand
Strand 2	B	223	226	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	B	93	95	first strand
Strand 2	B	218	220	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	B	174	177	first strand
Strand 2	B	237	240	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	281	282	first strand
Strand 2	B	321	322	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	43	45	first strand
Strand 2	G	184	186	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	87	91	first strand
Strand 2	G	222	226	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	G	94	95	first strand
Strand 2	G	218	219	anti-parallel

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There are 4 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	237	240	first strand
Strand 2	G	174	178	anti-parallel
Strand 3	G	279	282	anti-parallel
Strand 4	G	320	322	parallel

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There are 4 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	45	first strand
Strand 2	D	184	186	parallel
Strand 3	D	221	228	anti-parallel
Strand 4	D	87	92	anti-parallel

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There are 4 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	64	65	first strand
Strand 2	E	87	93	anti-parallel
Strand 3	E	219	226	anti-parallel
Strand 4	E	197	199	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	D	281	283	first strand
Strand 2	D	321	323	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	K	54	55	first strand
Strand 2	K	60	61	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	44	45	first strand
Strand 2	C	184	186	parallel
Strand 3	C	221	228	anti-parallel
Strand 4	C	87	92	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	179	180	first strand
Strand 2	C	277	278	anti-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	C	202	203	first strand
Strand 2	C	215	216	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	281	282	first strand
Strand 2	C	321	322	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	44	45	first strand
Strand 2	E	185	186	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	236	240	first strand
Strand 2	E	174	180	anti-parallel
Strand 3	E	277	278	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	281	283	first strand
Strand 2	E	321	323	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: 3J40

Analysis of interatomic Contacts of Structural Units in PDB entry:
3J40