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

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 3DXB entry

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

Chain ID	Initial residue	Terminal residue
A	PRO 343	ALA 556
B	ASP 346	ALA 556
C	ASP 346	ALA 556
D	HIS 341	ALA 556
E	LYS 347	ALA 556
F	ASP 346	ALA 556
G	ASP 346	ALA 556
H	ASP 346	ALA 556

There are 62 helices in PDB entry 3DXB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	355	361	Right-handed alpha
Helix 2	2	A	376	393	Right-handed alpha
Helix 3	3	A	410	415	Right-handed 310
Helix 4	4	A	439	451	Right-handed alpha
Helix 5	5	A	468	472	Right-handed 310
Helix 6	6	A	475	485	Right-handed alpha
Helix 7	7	A	518	530	Right-handed alpha
Helix 8	8	A	545	551	Right-handed alpha
Helix 9	9	B	355	360	Right-handed alpha
Helix 10	10	B	376	393	Right-handed alpha
Helix 11	11	B	410	415	Right-handed 310
Helix 12	12	B	439	451	Right-handed alpha
Helix 13	13	B	468	472	Right-handed 310
Helix 14	14	B	475	485	Right-handed alpha
Helix 15	15	B	518	530	Right-handed alpha
Helix 16	16	B	545	551	Right-handed alpha
Helix 17	17	C	355	360	Right-handed alpha
Helix 18	18	C	376	393	Right-handed alpha
Helix 19	19	C	410	415	Right-handed 310
Helix 20	20	C	439	452	Right-handed alpha
Helix 21	21	C	468	472	Right-handed 310
Helix 22	22	C	475	485	Right-handed alpha
Helix 23	23	C	518	530	Right-handed alpha
Helix 24	24	C	545	551	Right-handed alpha
Helix 25	25	D	355	360	Right-handed alpha
Helix 26	26	D	376	393	Right-handed alpha
Helix 27	27	D	410	415	Right-handed 310
Helix 28	28	D	439	451	Right-handed alpha
Helix 29	29	D	475	485	Right-handed alpha
Helix 30	30	D	518	530	Right-handed alpha
Helix 31	31	D	545	551	Right-handed alpha
Helix 32	32	E	355	360	Right-handed alpha
Helix 33	33	E	376	393	Right-handed alpha
Helix 34	34	E	410	415	Right-handed 310
Helix 35	35	E	439	452	Right-handed alpha
Helix 36	36	E	475	485	Right-handed alpha
Helix 37	37	E	518	530	Right-handed alpha
Helix 38	38	E	545	551	Right-handed alpha
Helix 39	39	F	355	360	Right-handed alpha
Helix 40	40	F	376	393	Right-handed alpha
Helix 41	41	F	410	415	Right-handed 310
Helix 42	42	F	439	451	Right-handed alpha
Helix 43	43	F	468	472	Right-handed 310
Helix 44	44	F	475	485	Right-handed alpha
Helix 45	45	F	518	530	Right-handed alpha
Helix 46	46	F	545	551	Right-handed alpha
Helix 47	47	G	355	360	Right-handed alpha
Helix 48	48	G	376	393	Right-handed alpha
Helix 49	49	G	410	415	Right-handed 310
Helix 50	50	G	439	452	Right-handed alpha
Helix 51	51	G	468	472	Right-handed 310
Helix 52	52	G	475	485	Right-handed alpha
Helix 53	53	G	518	530	Right-handed alpha
Helix 54	54	G	545	551	Right-handed alpha
Helix 55	55	H	355	360	Right-handed alpha
Helix 56	56	H	376	393	Right-handed alpha
Helix 57	57	H	410	415	Right-handed 310
Helix 58	58	H	439	453	Right-handed alpha
Helix 59	59	H	468	472	Right-handed 310
Helix 60	60	H	475	485	Right-handed alpha
Helix 61	61	H	518	530	Right-handed alpha
Helix 62	62	H	545	551	Right-handed alpha

There are 22 sheets in PDB entry 3DXB. 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,

There are 5 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	349	350	first strand
Strand 2	A	397	403	parallel
Strand 3	A	366	372	parallel
Strand 4	A	421	426	anti-parallel
Strand 5	A	429	435	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	490	499	first strand
Strand 2	A	508	516	anti-parallel
Strand 3	A	460	464	anti-parallel
Strand 4	A	540	543	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	349	350	first strand
Strand 2	B	397	403	parallel
Strand 3	B	366	372	parallel
Strand 4	B	421	426	anti-parallel
Strand 5	B	429	435	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	B	490	499	first strand
Strand 2	B	508	516	anti-parallel
Strand 3	B	460	464	anti-parallel
Strand 4	B	540	543	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	533	534	first strand
Strand 2	B	537	538	anti-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	C	349	350	first strand
Strand 2	C	397	403	parallel
Strand 3	C	366	372	parallel
Strand 4	C	421	426	anti-parallel
Strand 5	C	429	435	anti-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	C	490	499	first strand
Strand 2	C	508	516	anti-parallel
Strand 3	C	460	464	anti-parallel
Strand 4	C	540	543	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	C	533	534	first strand
Strand 2	C	537	538	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	349	350	first strand
Strand 2	D	398	403	parallel
Strand 3	D	367	372	parallel
Strand 4	D	421	426	anti-parallel
Strand 5	D	429	435	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	D	490	499	first strand
Strand 2	D	508	516	anti-parallel
Strand 3	D	460	464	anti-parallel
Strand 4	D	540	543	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	349	350	first strand
Strand 2	E	397	403	parallel
Strand 3	E	366	372	parallel
Strand 4	E	421	426	anti-parallel
Strand 5	E	429	435	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	E	490	499	first strand
Strand 2	E	508	516	anti-parallel
Strand 3	E	460	464	anti-parallel
Strand 4	E	540	543	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	E	533	534	first strand
Strand 2	E	537	538	anti-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	F	349	350	first strand
Strand 2	F	397	403	parallel
Strand 3	F	366	372	parallel
Strand 4	F	421	426	anti-parallel
Strand 5	F	429	435	anti-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	F	490	499	first strand
Strand 2	F	508	516	anti-parallel
Strand 3	F	460	464	anti-parallel
Strand 4	F	540	543	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	F	533	534	first strand
Strand 2	F	537	538	anti-parallel

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There are 5 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	349	350	first strand
Strand 2	G	397	403	parallel
Strand 3	G	366	372	parallel
Strand 4	G	421	426	anti-parallel
Strand 5	G	429	435	anti-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	G	490	499	first strand
Strand 2	G	508	516	anti-parallel
Strand 3	G	460	464	anti-parallel
Strand 4	G	540	543	anti-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	G	533	534	first strand
Strand 2	G	537	538	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	349	350	first strand
Strand 2	H	397	403	parallel
Strand 3	H	366	372	parallel
Strand 4	H	421	426	anti-parallel
Strand 5	H	429	435	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	490	500	first strand
Strand 2	H	507	516	anti-parallel
Strand 3	H	460	464	anti-parallel
Strand 4	H	540	544	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	H	533	534	first strand
Strand 2	H	537	538	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: 3DXB

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