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

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 4GDJ entry

There are 3 chains in PDB entry 4GDJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 91	SER 451
B	MET 91	GLN 454
C	MET 91	ARG 102

There are 8 helices in PDB entry 4GDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	197	200	Right-handed 310
Helix 2	2	A	246	250	Right-handed 310
Helix 3	3	B	197	200	Right-handed 310
Helix 4	4	B	246	250	Right-handed 310
Helix 5	5	C	197	200	Right-handed 310
Helix 6	6	C	246	250	Right-handed 310
Helix 7	7	D	197	200	Right-handed 310
Helix 8	8	D	246	250	Right-handed 310

There are 20 sheets in PDB entry 4GDJ. 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 8 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	96	101	first strand
Strand 2	A	442	449	anti-parallel
Strand 3	A	421	426	anti-parallel
Strand 4	A	393	410	anti-parallel
Strand 5	D	393	410	anti-parallel
Strand 6	D	421	426	anti-parallel
Strand 7	D	442	449	anti-parallel
Strand 8	D	96	101	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	360	364	first strand
Strand 2	A	372	379	anti-parallel
Strand 3	A	393	410	anti-parallel
Strand 4	D	393	410	anti-parallel
Strand 5	D	372	379	anti-parallel
Strand 6	D	360	364	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	115	124	first strand
Strand 2	A	129	138	anti-parallel
Strand 3	A	157	162	anti-parallel
Strand 4	A	172	176	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	179	184	first strand
Strand 2	A	189	195	anti-parallel
Strand 3	A	202	207	anti-parallel
Strand 4	A	210	216	anti-parallel

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There are 4 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	231	233	first strand
Strand 2	A	236	243	anti-parallel
Strand 3	A	251	258	anti-parallel
Strand 4	A	261	267	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	276	283	first strand
Strand 2	A	286	292	anti-parallel
Strand 3	A	302	306	anti-parallel
Strand 4	A	312	315	anti-parallel

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There are 8 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	94	101	first strand
Strand 2	B	442	450	anti-parallel
Strand 3	B	421	426	anti-parallel
Strand 4	B	393	410	anti-parallel
Strand 5	C	393	410	anti-parallel
Strand 6	C	421	426	anti-parallel
Strand 7	C	442	449	anti-parallel
Strand 8	C	96	101	anti-parallel

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There are 6 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	360	364	first strand
Strand 2	B	372	379	anti-parallel
Strand 3	B	393	410	anti-parallel
Strand 4	C	393	410	anti-parallel
Strand 5	C	372	379	anti-parallel
Strand 6	C	360	364	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	115	124	first strand
Strand 2	B	129	138	anti-parallel
Strand 3	B	157	162	anti-parallel
Strand 4	B	172	176	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	B	179	184	first strand
Strand 2	B	189	195	anti-parallel
Strand 3	B	202	207	anti-parallel
Strand 4	B	210	216	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	231	233	first strand
Strand 2	B	236	243	anti-parallel
Strand 3	B	251	258	anti-parallel
Strand 4	B	261	267	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	276	283	first strand
Strand 2	B	286	292	anti-parallel
Strand 3	B	302	306	anti-parallel
Strand 4	B	312	315	anti-parallel

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There are 4 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	115	124	first strand
Strand 2	C	129	138	anti-parallel
Strand 3	C	157	162	anti-parallel
Strand 4	C	172	176	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	179	184	first strand
Strand 2	C	189	195	anti-parallel
Strand 3	C	202	207	anti-parallel
Strand 4	C	210	216	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	C	231	233	first strand
Strand 2	C	236	243	anti-parallel
Strand 3	C	251	258	anti-parallel
Strand 4	C	261	267	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	276	283	first strand
Strand 2	C	286	292	anti-parallel
Strand 3	C	302	306	anti-parallel
Strand 4	C	312	315	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	D	115	124	first strand
Strand 2	D	129	138	anti-parallel
Strand 3	D	157	162	anti-parallel
Strand 4	D	172	176	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	D	179	184	first strand
Strand 2	D	189	195	anti-parallel
Strand 3	D	202	207	anti-parallel
Strand 4	D	210	216	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	231	233	first strand
Strand 2	D	236	243	anti-parallel
Strand 3	D	251	258	anti-parallel
Strand 4	D	261	267	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	276	283	first strand
Strand 2	D	286	292	anti-parallel
Strand 3	D	302	306	anti-parallel
Strand 4	D	312	315	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: 4GDJ

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