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

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 4GDI entry

There are 2 chains in PDB entry 4GDI (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE 83	SER 460
B	PHE 83	GLN 371

There are 12 helices in PDB entry 4GDI. 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
Helix 9	9	E	197	200	Right-handed 310
Helix 10	10	E	246	250	Right-handed 310
Helix 11	11	F	197	200	Right-handed 310
Helix 12	12	F	246	250	Right-handed 310

There are 36 sheets in PDB entry 4GDI. 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,

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	96	101	first strand
Strand 2	A	439	449	anti-parallel
Strand 3	A	421	429	anti-parallel
Strand 4	A	394	410	anti-parallel
Strand 5	A	372	379	anti-parallel
Strand 6	A	360	364	anti-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	115	124	first strand
Strand 2	A	129	140	anti-parallel
Strand 3	A	143	144	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	140	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 6 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	96	101	first strand
Strand 2	B	439	449	anti-parallel
Strand 3	B	421	429	anti-parallel
Strand 4	B	394	410	anti-parallel
Strand 5	B	372	379	anti-parallel
Strand 6	B	360	364	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	115	124	first strand
Strand 2	B	129	140	anti-parallel
Strand 3	B	143	144	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	140	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 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	C	96	101	first strand
Strand 2	C	439	449	anti-parallel
Strand 3	C	421	429	anti-parallel
Strand 4	C	394	410	anti-parallel
Strand 5	C	372	379	anti-parallel
Strand 6	C	360	364	anti-parallel

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There are 3 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	115	124	first strand
Strand 2	C	129	140	anti-parallel
Strand 3	C	143	144	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	115	124	first strand
Strand 2	C	129	140	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 P 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 Q 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 R 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 7 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	96	101	first strand
Strand 2	D	439	449	anti-parallel
Strand 3	D	421	429	anti-parallel
Strand 4	D	394	410	anti-parallel
Strand 5	D	372	379	anti-parallel
Strand 6	D	360	364	anti-parallel
Strand 7	D	353	354	anti-parallel

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There are 3 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	115	124	first strand
Strand 2	D	129	140	anti-parallel
Strand 3	D	143	144	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	D	115	124	first strand
Strand 2	D	129	140	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 V 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 W 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 X 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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There are 6 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	96	101	first strand
Strand 2	E	439	449	anti-parallel
Strand 3	E	421	429	anti-parallel
Strand 4	E	394	410	anti-parallel
Strand 5	E	372	379	anti-parallel
Strand 6	E	360	364	anti-parallel

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There are 3 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	115	124	first strand
Strand 2	E	129	140	anti-parallel
Strand 3	E	143	144	anti-parallel

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There are 4 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	115	124	first strand
Strand 2	E	129	140	anti-parallel
Strand 3	E	157	162	anti-parallel
Strand 4	E	172	176	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	179	184	first strand
Strand 2	E	189	195	anti-parallel
Strand 3	E	202	207	anti-parallel
Strand 4	E	210	216	anti-parallel

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

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There are 6 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	96	101	first strand
Strand 2	F	439	449	anti-parallel
Strand 3	F	421	429	anti-parallel
Strand 4	F	394	410	anti-parallel
Strand 5	F	372	379	anti-parallel
Strand 6	F	360	364	anti-parallel

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There are 3 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	115	124	first strand
Strand 2	F	129	140	anti-parallel
Strand 3	F	143	144	anti-parallel

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There are 4 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	115	124	first strand
Strand 2	F	129	140	anti-parallel
Strand 3	F	157	162	anti-parallel
Strand 4	F	172	176	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	179	184	first strand
Strand 2	F	189	195	anti-parallel
Strand 3	F	202	207	anti-parallel
Strand 4	F	210	216	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	231	233	first strand
Strand 2	F	236	243	anti-parallel
Strand 3	F	251	258	anti-parallel
Strand 4	F	261	267	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	276	283	first strand
Strand 2	F	286	292	anti-parallel
Strand 3	F	302	306	anti-parallel
Strand 4	F	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: 4GDI

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