Analysis of interatomic Contacts of Structural Units in PDB entry:
4JKM

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 4JKM entry

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

Chain ID	Initial residue	Terminal residue
A	SER -2	LYS 599
B	SER -2	LYS 599
D	ILE 18	SER 379
C	LYS 111	SER 378

There are 52 helices in PDB entry 4JKM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	30	36	Right-handed 310
Helix 2	2	A	56	61	Right-handed alpha
Helix 3	3	A	75	79	Right-handed 310
Helix 4	4	A	309	324	Right-handed alpha
Helix 5	5	A	336	347	Right-handed alpha
Helix 6	6	A	376	381	Right-handed alpha
Helix 7	7	A	383	399	Right-handed alpha
Helix 8	8	A	419	435	Right-handed alpha
Helix 9	9	A	477	496	Right-handed alpha
Helix 10	10	A	523	539	Right-handed alpha
Helix 11	11	A	579	590	Right-handed alpha
Helix 12	12	B	30	36	Right-handed 310
Helix 13	13	B	56	61	Right-handed alpha
Helix 14	14	B	75	79	Right-handed 310
Helix 15	15	B	309	324	Right-handed alpha
Helix 16	16	B	336	347	Right-handed alpha
Helix 17	17	B	376	381	Right-handed alpha
Helix 18	18	B	383	399	Right-handed alpha
Helix 19	19	B	419	435	Right-handed alpha
Helix 20	20	B	477	496	Right-handed alpha
Helix 21	21	B	523	539	Right-handed alpha
Helix 22	22	B	579	590	Right-handed alpha
Helix 23	23	D	24	29	Right-handed alpha
Helix 24	24	D	47	53	Right-handed alpha
Helix 25	25	D	54	56	Right-handed 310
Helix 26	26	D	73	82	Right-handed alpha
Helix 27	27	D	91	96	Right-handed alpha
Helix 28	28	D	97	98	Right-handed 310
Helix 29	29	D	99	105	Right-handed 310
Helix 30	30	D	137	139	Right-handed 310
Helix 31	31	D	140	150	Right-handed alpha
Helix 32	32	D	162	171	Right-handed alpha
Helix 33	33	D	194	210	Right-handed alpha
Helix 34	34	D	218	229	Right-handed alpha
Helix 35	35	D	237	239	Right-handed 310
Helix 36	36	D	240	247	Right-handed alpha
Helix 37	37	D	282	294	Right-handed alpha
Helix 38	38	D	295	306	Right-handed alpha
Helix 39	39	D	313	321	Right-handed alpha
Helix 40	40	D	323	335	Right-handed alpha
Helix 41	41	D	344	362	Right-handed alpha
Helix 42	42	D	365	378	Right-handed alpha
Helix 43	43	C	140	150	Right-handed alpha
Helix 44	44	C	162	171	Right-handed alpha
Helix 45	45	C	194	210	Right-handed alpha
Helix 46	46	C	218	229	Right-handed alpha
Helix 47	47	C	237	240	Right-handed 310
Helix 48	48	C	241	246	Right-handed alpha
Helix 49	49	C	304	311	Right-handed alpha
Helix 50	50	C	323	335	Right-handed alpha
Helix 51	51	C	344	361	Right-handed alpha
Helix 52	52	C	365	377	Right-handed alpha

There are 24 sheets in PDB entry 4JKM. 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,

There are 4 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	12	14	first strand
Strand 2	A	175	180	anti-parallel
Strand 3	A	82	87	anti-parallel
Strand 4	A	113	116	anti-parallel

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There are 6 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	42	46	first strand
Strand 2	A	17	23	anti-parallel
Strand 3	A	65	72	anti-parallel
Strand 4	A	126	133	anti-parallel
Strand 5	A	93	98	anti-parallel
Strand 6	A	101	107	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	48	49	first strand
Strand 2	A	170	171	anti-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	A	144	151	first strand
Strand 2	A	154	161	anti-parallel

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There are 3 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	184	195	first strand
Strand 2	A	198	208	anti-parallel
Strand 3	A	232	237	anti-parallel

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There are 4 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	224	229	first strand
Strand 2	A	212	218	anti-parallel
Strand 3	A	251	259	anti-parallel
Strand 4	A	262	271	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	276	279	first strand
Strand 2	A	282	285	anti-parallel
Strand 3	A	288	289	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	292	296	first strand
Strand 2	A	327	329	parallel
Strand 3	A	349	353	parallel
Strand 4	A	404	411	parallel
Strand 5	A	441	445	parallel
Strand 6	A	463	466	parallel
Strand 7	A	501	505	parallel
Strand 8	A	544	550	parallel
Strand 9	A	292	296	parallel

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There are 4 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	12	14	first strand
Strand 2	B	175	180	anti-parallel
Strand 3	B	82	87	anti-parallel
Strand 4	B	113	116	anti-parallel

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There are 6 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	42	46	first strand
Strand 2	B	17	23	anti-parallel
Strand 3	B	65	72	anti-parallel
Strand 4	B	126	133	anti-parallel
Strand 5	B	93	98	anti-parallel
Strand 6	B	101	107	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	48	49	first strand
Strand 2	B	170	171	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	144	150	first strand
Strand 2	B	155	161	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	B	184	195	first strand
Strand 2	B	198	208	anti-parallel
Strand 3	B	232	238	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	B	224	229	first strand
Strand 2	B	212	218	anti-parallel
Strand 3	B	251	259	anti-parallel
Strand 4	B	262	271	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	B	276	279	first strand
Strand 2	B	282	285	anti-parallel
Strand 3	B	288	289	anti-parallel

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There are 8 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	441	444	first strand
Strand 2	B	404	411	parallel
Strand 3	B	349	353	parallel
Strand 4	B	327	329	parallel
Strand 5	B	292	296	parallel
Strand 6	B	544	550	parallel
Strand 7	B	501	505	parallel
Strand 8	B	463	466	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	D	68	72	first strand
Strand 2	D	267	275	anti-parallel
Strand 3	D	114	120	anti-parallel
Strand 4	D	310	311	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	D	68	72	first strand
Strand 2	D	267	275	anti-parallel
Strand 3	D	337	338	parallel

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There are 2 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	107	108	first strand
Strand 2	D	111	112	anti-parallel

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There are 4 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	154	156	first strand
Strand 2	D	231	236	parallel
Strand 3	D	123	127	anti-parallel
Strand 4	D	251	254	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	D	176	181	first strand
Strand 2	D	184	191	anti-parallel

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There are 3 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	120	121	first strand
Strand 2	C	267	269	anti-parallel
Strand 3	C	337	338	parallel

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There are 4 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	154	156	first strand
Strand 2	C	231	236	parallel
Strand 3	C	123	127	anti-parallel
Strand 4	C	251	254	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	176	181	first strand
Strand 2	C	184	191	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: 4JKM

Analysis of interatomic Contacts of Structural Units in PDB entry:
4JKM