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

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 3JAF entry

There are 5 chains in PDB entry 3JAF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 25	ARG 366
B	ALA 25	ARG 366
C	ALA 25	ARG 366
D	ALA 25	ARG 366
E	ALA 25	ARG 366

There are 45 helices in PDB entry 3JAF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	25	34	Right-handed alpha
Helix 2	2	A	36	40	Right-handed 310
Helix 3	3	A	87	90	Right-handed 310
Helix 4	4	A	104	108	Right-handed 310
Helix 5	5	A	235	243	Right-handed alpha
Helix 6	6	A	243	260	Right-handed alpha
Helix 7	7	A	264	290	Right-handed alpha
Helix 8	8	A	297	325	Right-handed alpha
Helix 9	9	A	328	363	Right-handed alpha
Helix 10	10	B	26	34	Right-handed alpha
Helix 11	11	B	36	40	Right-handed 310
Helix 12	12	B	87	90	Right-handed 310
Helix 13	13	B	104	108	Right-handed 310
Helix 14	14	B	235	243	Right-handed alpha
Helix 15	15	B	243	260	Right-handed alpha
Helix 16	16	B	264	290	Right-handed alpha
Helix 17	17	B	297	325	Right-handed alpha
Helix 18	18	B	328	363	Right-handed alpha
Helix 19	19	C	26	34	Right-handed alpha
Helix 20	20	C	36	40	Right-handed 310
Helix 21	21	C	87	90	Right-handed 310
Helix 22	22	C	104	108	Right-handed 310
Helix 23	23	C	235	243	Right-handed alpha
Helix 24	24	C	243	260	Right-handed alpha
Helix 25	25	C	264	290	Right-handed alpha
Helix 26	26	C	297	325	Right-handed alpha
Helix 27	27	C	328	363	Right-handed alpha
Helix 28	28	D	26	34	Right-handed alpha
Helix 29	29	D	36	40	Right-handed 310
Helix 30	30	D	87	90	Right-handed 310
Helix 31	31	D	104	108	Right-handed 310
Helix 32	32	D	235	243	Right-handed alpha
Helix 33	33	D	243	260	Right-handed alpha
Helix 34	34	D	264	290	Right-handed alpha
Helix 35	35	D	297	325	Right-handed alpha
Helix 36	36	D	328	363	Right-handed alpha
Helix 37	37	E	26	34	Right-handed alpha
Helix 38	38	E	36	40	Right-handed 310
Helix 39	39	E	87	90	Right-handed 310
Helix 40	40	E	104	108	Right-handed 310
Helix 41	41	E	235	243	Right-handed alpha
Helix 42	42	E	243	260	Right-handed alpha
Helix 43	43	E	264	290	Right-handed alpha
Helix 44	44	E	297	325	Right-handed alpha
Helix 45	45	E	328	363	Right-handed alpha

There are 20 sheets in PDB entry 3JAF. 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,

There are 6 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	98	100	first strand
Strand 2	A	132	137	anti-parallel
Strand 3	A	141	153	anti-parallel
Strand 4	A	73	85	anti-parallel
Strand 5	A	53	65	anti-parallel
Strand 6	A	182	185	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	122	124	first strand
Strand 2	A	141	153	anti-parallel
Strand 3	A	73	85	anti-parallel
Strand 4	A	53	65	anti-parallel
Strand 5	A	192	194	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	115	116	first strand
Strand 2	A	165	173	anti-parallel
Strand 3	A	222	234	anti-parallel
Strand 4	A	203	205	anti-parallel

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There are 4 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	115	116	first strand
Strand 2	A	165	173	anti-parallel
Strand 3	A	222	234	anti-parallel
Strand 4	A	211	217	anti-parallel

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There are 6 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	98	100	first strand
Strand 2	B	132	137	anti-parallel
Strand 3	B	141	153	anti-parallel
Strand 4	B	73	85	anti-parallel
Strand 5	B	53	65	anti-parallel
Strand 6	B	182	185	parallel

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There are 5 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	122	124	first strand
Strand 2	B	141	153	anti-parallel
Strand 3	B	73	85	anti-parallel
Strand 4	B	53	65	anti-parallel
Strand 5	B	192	194	parallel

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There are 4 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	115	116	first strand
Strand 2	B	165	173	anti-parallel
Strand 3	B	222	234	anti-parallel
Strand 4	B	203	205	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	B	115	116	first strand
Strand 2	B	165	173	anti-parallel
Strand 3	B	222	234	anti-parallel
Strand 4	B	211	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	98	100	first strand
Strand 2	C	132	137	anti-parallel
Strand 3	C	141	153	anti-parallel
Strand 4	C	73	85	anti-parallel
Strand 5	C	53	65	anti-parallel
Strand 6	C	182	185	parallel

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There are 5 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	122	124	first strand
Strand 2	C	141	153	anti-parallel
Strand 3	C	73	85	anti-parallel
Strand 4	C	53	65	anti-parallel
Strand 5	C	192	194	parallel

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There are 4 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	115	116	first strand
Strand 2	C	165	173	anti-parallel
Strand 3	C	222	234	anti-parallel
Strand 4	C	203	205	anti-parallel

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There are 4 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	115	116	first strand
Strand 2	C	165	173	anti-parallel
Strand 3	C	222	234	anti-parallel
Strand 4	C	211	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	100	first strand
Strand 2	D	132	137	anti-parallel
Strand 3	D	141	153	anti-parallel
Strand 4	D	73	85	anti-parallel
Strand 5	D	53	65	anti-parallel
Strand 6	D	182	185	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	D	122	124	first strand
Strand 2	D	141	153	anti-parallel
Strand 3	D	73	85	anti-parallel
Strand 4	D	53	65	anti-parallel
Strand 5	D	192	194	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	115	116	first strand
Strand 2	D	165	173	anti-parallel
Strand 3	D	222	234	anti-parallel
Strand 4	D	203	205	anti-parallel

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There are 4 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	115	116	first strand
Strand 2	D	165	173	anti-parallel
Strand 3	D	222	234	anti-parallel
Strand 4	D	211	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	98	100	first strand
Strand 2	E	132	137	anti-parallel
Strand 3	E	141	153	anti-parallel
Strand 4	E	73	85	anti-parallel
Strand 5	E	53	65	anti-parallel
Strand 6	E	182	185	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	122	124	first strand
Strand 2	E	141	153	anti-parallel
Strand 3	E	73	85	anti-parallel
Strand 4	E	53	65	anti-parallel
Strand 5	E	192	194	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	E	115	116	first strand
Strand 2	E	165	173	anti-parallel
Strand 3	E	222	234	anti-parallel
Strand 4	E	203	205	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	E	115	116	first strand
Strand 2	E	165	173	anti-parallel
Strand 3	E	222	234	anti-parallel
Strand 4	E	211	217	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: 3JAF

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