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

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 4JDO entry

There are 9 chains in PDB entry 4JDO (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 2	GLN 261
B	MSE 1	ASN 263
C	MSE 1	THR 262
D	GLY 2	ASN 263
E	MSE 1	THR 262
F	MSE 1	THR 262
G	MSE 1	THR 262
H	MSE 1	GLN 261
I	MSE 1	THR 262

There are 9 helices in PDB entry 4JDO. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	243	247	Right-handed 310
Helix 2	2	B	243	247	Right-handed 310
Helix 3	3	C	243	247	Right-handed 310
Helix 4	4	D	243	247	Right-handed 310
Helix 5	5	E	243	247	Right-handed 310
Helix 6	6	F	243	247	Right-handed 310
Helix 7	7	G	243	247	Right-handed 310
Helix 8	8	H	243	247	Right-handed 310
Helix 9	9	I	243	247	Right-handed 310

There are 51 sheets in PDB entry 4JDO. 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, AC, AD, AE, AF, AG, AH, AI, AJ, AK, AL, AM, AN, AO, AP, AQ, AR, AS, AT, AU, AV, AW, AX, AY,

There are 3 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	5	9	first strand
Strand 2	A	12	17	anti-parallel
Strand 3	C	19	22	parallel

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There are 3 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	19	22	first strand
Strand 2	B	12	17	parallel
Strand 3	B	5	9	anti-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	33	36	first strand
Strand 2	A	43	49	anti-parallel
Strand 3	B	65	71	parallel
Strand 4	B	53	58	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	53	58	first strand
Strand 2	A	65	71	anti-parallel
Strand 3	C	43	49	parallel
Strand 4	C	33	36	anti-parallel

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There are 5 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	120	125	first strand
Strand 2	A	251	258	anti-parallel
Strand 3	A	162	172	anti-parallel
Strand 4	A	233	235	anti-parallel
Strand 5	A	129	131	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	120	125	first strand
Strand 2	A	251	258	anti-parallel
Strand 3	A	162	172	anti-parallel
Strand 4	A	203	212	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	A	147	154	first strand
Strand 2	A	219	227	anti-parallel
Strand 3	A	176	184	anti-parallel
Strand 4	A	192	198	anti-parallel

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There are 3 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	19	22	first strand
Strand 2	C	12	17	parallel
Strand 3	C	5	9	anti-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	33	36	first strand
Strand 2	B	43	49	anti-parallel
Strand 3	C	65	71	parallel
Strand 4	C	53	59	anti-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	B	120	125	first strand
Strand 2	B	251	258	anti-parallel
Strand 3	B	162	172	anti-parallel
Strand 4	B	233	235	anti-parallel
Strand 5	B	129	131	anti-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	B	120	125	first strand
Strand 2	B	251	258	anti-parallel
Strand 3	B	162	172	anti-parallel
Strand 4	B	203	212	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	B	147	154	first strand
Strand 2	B	219	227	anti-parallel
Strand 3	B	176	184	anti-parallel
Strand 4	B	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	120	125	first strand
Strand 2	C	251	258	anti-parallel
Strand 3	C	162	172	anti-parallel
Strand 4	C	233	235	anti-parallel
Strand 5	C	129	131	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	C	120	125	first strand
Strand 2	C	251	258	anti-parallel
Strand 3	C	162	172	anti-parallel
Strand 4	C	203	212	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	C	134	135	first strand
Strand 2	C	219	228	parallel
Strand 3	C	147	154	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	C	134	135	first strand
Strand 2	C	219	228	parallel
Strand 3	C	176	184	anti-parallel
Strand 4	C	192	198	anti-parallel

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There are 3 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	5	9	first strand
Strand 2	D	12	17	anti-parallel
Strand 3	F	19	22	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	19	22	first strand
Strand 2	E	12	17	parallel
Strand 3	E	5	9	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	33	36	first strand
Strand 2	D	43	49	anti-parallel
Strand 3	E	66	71	parallel
Strand 4	E	53	58	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	53	57	first strand
Strand 2	D	65	71	anti-parallel
Strand 3	F	43	49	parallel
Strand 4	F	33	36	anti-parallel

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There are 5 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	120	125	first strand
Strand 2	D	251	258	anti-parallel
Strand 3	D	162	172	anti-parallel
Strand 4	D	233	235	anti-parallel
Strand 5	D	129	131	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	D	120	125	first strand
Strand 2	D	251	258	anti-parallel
Strand 3	D	162	172	anti-parallel
Strand 4	D	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	134	135	first strand
Strand 2	D	219	228	parallel
Strand 3	D	147	154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	134	135	first strand
Strand 2	D	219	228	parallel
Strand 3	D	176	184	anti-parallel
Strand 4	D	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	19	22	first strand
Strand 2	F	12	17	parallel
Strand 3	F	5	9	anti-parallel

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There are 4 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	33	36	first strand
Strand 2	E	43	49	anti-parallel
Strand 3	F	65	71	parallel
Strand 4	F	53	58	anti-parallel

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There are 5 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	120	125	first strand
Strand 2	E	251	258	anti-parallel
Strand 3	E	162	172	anti-parallel
Strand 4	E	233	235	anti-parallel
Strand 5	E	129	131	anti-parallel

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There are 4 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	120	125	first strand
Strand 2	E	251	258	anti-parallel
Strand 3	E	162	172	anti-parallel
Strand 4	E	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	134	135	first strand
Strand 2	E	219	228	parallel
Strand 3	E	147	154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	134	135	first strand
Strand 2	E	219	228	parallel
Strand 3	E	176	184	anti-parallel
Strand 4	E	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	120	125	first strand
Strand 2	F	251	258	anti-parallel
Strand 3	F	162	172	anti-parallel
Strand 4	F	233	235	anti-parallel
Strand 5	F	129	131	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	120	125	first strand
Strand 2	F	251	258	anti-parallel
Strand 3	F	162	172	anti-parallel
Strand 4	F	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	134	135	first strand
Strand 2	F	219	228	parallel
Strand 3	F	147	154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	134	135	first strand
Strand 2	F	219	228	parallel
Strand 3	F	176	184	anti-parallel
Strand 4	F	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	5	9	first strand
Strand 2	G	12	17	anti-parallel
Strand 3	I	19	22	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	19	22	first strand
Strand 2	H	12	17	parallel
Strand 3	H	5	9	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	33	36	first strand
Strand 2	G	43	49	anti-parallel
Strand 3	H	65	71	parallel
Strand 4	H	53	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	53	58	first strand
Strand 2	G	66	71	anti-parallel
Strand 3	I	43	49	parallel
Strand 4	I	33	36	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	120	125	first strand
Strand 2	G	251	258	anti-parallel
Strand 3	G	162	172	anti-parallel
Strand 4	G	233	235	anti-parallel
Strand 5	G	129	131	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	120	125	first strand
Strand 2	G	251	258	anti-parallel
Strand 3	G	162	172	anti-parallel
Strand 4	G	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	147	154	first strand
Strand 2	G	219	227	anti-parallel
Strand 3	G	176	184	anti-parallel
Strand 4	G	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	19	22	first strand
Strand 2	I	12	17	parallel
Strand 3	I	5	9	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	33	36	first strand
Strand 2	H	43	49	anti-parallel
Strand 3	I	65	71	parallel
Strand 4	I	53	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	125	first strand
Strand 2	H	251	258	anti-parallel
Strand 3	H	162	172	anti-parallel
Strand 4	H	233	235	anti-parallel
Strand 5	H	129	131	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	125	first strand
Strand 2	H	251	258	anti-parallel
Strand 3	H	162	172	anti-parallel
Strand 4	H	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	135	first strand
Strand 2	H	219	228	parallel
Strand 3	H	147	154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	135	first strand
Strand 2	H	219	228	parallel
Strand 3	H	176	184	anti-parallel
Strand 4	H	192	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	120	125	first strand
Strand 2	I	251	258	anti-parallel
Strand 3	I	162	172	anti-parallel
Strand 4	I	233	235	anti-parallel
Strand 5	I	129	131	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	120	125	first strand
Strand 2	I	251	258	anti-parallel
Strand 3	I	162	172	anti-parallel
Strand 4	I	203	212	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	134	135	first strand
Strand 2	I	219	228	parallel
Strand 3	I	147	154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	134	135	first strand
Strand 2	I	219	228	parallel
Strand 3	I	176	184	anti-parallel
Strand 4	I	192	198	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: 4JDO

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