Analysis of interatomic Contacts of Structural Units in PDB entry:
5TOD

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 5TOD entry

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

Chain ID	Initial residue	Terminal residue
F	ALA 90	ASN 256
A	LEU 89	VAL 255
B	LEU 89	VAL 255
C	SER 97	ASN 256
D	LEU 89	GLU 159

There are 15 helices in PDB entry 5TOD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	F	90	94	Right-handed 310
Helix 2	AA2	F	95	115	Right-handed alpha
Helix 3	AA3	F	235	249	Right-handed alpha
Helix 4	AA4	A	90	94	Right-handed alpha
Helix 5	AA5	A	95	115	Right-handed alpha
Helix 6	AA6	A	235	249	Right-handed alpha
Helix 7	AA7	B	90	94	Right-handed alpha
Helix 8	AA8	B	95	115	Right-handed alpha
Helix 9	AA9	B	235	249	Right-handed alpha
Helix 10	AB1	C	98	115	Right-handed alpha
Helix 11	AB2	C	235	249	Right-handed alpha
Helix 12	AB3	D	95	117	Right-handed alpha
Helix 13	AB4	D	235	249	Right-handed alpha
Helix 14	AB5	E	96	115	Right-handed alpha
Helix 15	AB6	E	235	249	Right-handed alpha

There are 16 sheets in PDB entry 5TOD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7,

There are 6 strands in AA1 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	149	171	anti-parallel
Strand 3	E	134	145	anti-parallel
Strand 4	F	174	198	anti-parallel
Strand 5	F	202	209	anti-parallel
Strand 6	F	252	255	anti-parallel

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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	252	255	first strand
Strand 2	F	202	209	anti-parallel
Strand 3	F	174	198	anti-parallel
Strand 4	F	149	171	anti-parallel
Strand 5	F	122	125	anti-parallel

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There are 10 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	218	221	first strand
Strand 2	F	174	198	anti-parallel
Strand 3	F	149	171	anti-parallel
Strand 4	F	134	145	anti-parallel
Strand 5	C	174	198	anti-parallel
Strand 6	C	149	171	anti-parallel
Strand 7	C	134	145	anti-parallel
Strand 8	E	174	198	anti-parallel
Strand 9	E	149	171	anti-parallel
Strand 10	E	134	145	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	216	221	first strand
Strand 2	E	174	198	anti-parallel
Strand 3	E	202	209	anti-parallel
Strand 4	E	252	255	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	252	255	first strand
Strand 2	E	202	209	anti-parallel
Strand 3	E	174	198	anti-parallel
Strand 4	C	134	145	anti-parallel
Strand 5	C	149	171	anti-parallel
Strand 6	C	123	125	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	123	125	first strand
Strand 2	C	149	171	anti-parallel
Strand 3	C	174	198	anti-parallel
Strand 4	C	202	209	anti-parallel
Strand 5	C	252	255	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	252	255	first strand
Strand 2	C	202	209	anti-parallel
Strand 3	C	174	198	anti-parallel
Strand 4	C	216	221	anti-parallel

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There are 5 strands in AA8 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	149	171	anti-parallel
Strand 3	B	174	198	anti-parallel
Strand 4	B	202	209	anti-parallel
Strand 5	B	252	254	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	252	254	first strand
Strand 2	B	202	209	anti-parallel
Strand 3	B	174	198	anti-parallel
Strand 4	B	216	221	anti-parallel

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There are 5 strands in AB1 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	149	171	anti-parallel
Strand 3	B	134	145	anti-parallel
Strand 4	A	174	198	anti-parallel
Strand 5	A	216	221	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	252	255	first strand
Strand 2	A	202	209	anti-parallel
Strand 3	A	174	198	anti-parallel
Strand 4	A	149	171	anti-parallel
Strand 5	A	122	124	anti-parallel

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There are 6 strands in AB3 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	149	171	anti-parallel
Strand 3	A	134	145	anti-parallel
Strand 4	D	174	198	anti-parallel
Strand 5	D	202	209	anti-parallel
Strand 6	D	252	255	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	252	255	first strand
Strand 2	D	202	209	anti-parallel
Strand 3	D	174	198	anti-parallel
Strand 4	D	216	221	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	216	221	first strand
Strand 2	D	174	198	anti-parallel
Strand 3	D	149	171	anti-parallel
Strand 4	D	134	145	anti-parallel
Strand 5	B	174	198	anti-parallel
Strand 6	B	216	221	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	216	221	first strand
Strand 2	B	174	198	anti-parallel
Strand 3	B	202	209	anti-parallel
Strand 4	B	252	254	anti-parallel

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There are 9 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	134	145	first strand
Strand 2	A	149	171	anti-parallel
Strand 3	A	174	198	anti-parallel
Strand 4	B	134	145	anti-parallel
Strand 5	B	149	171	anti-parallel
Strand 6	B	174	198	anti-parallel
Strand 7	D	134	145	anti-parallel
Strand 8	D	149	171	anti-parallel
Strand 9	D	121	125	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: 5TOD

Analysis of interatomic Contacts of Structural Units in PDB entry:
5TOD