Analysis of interatomic Contacts of Structural Units in PDB entry:
4Y40

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 4Y40 entry

There are 2 chains in PDB entry 4Y40 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 36	LYS 414
B	SER 34	GLY 413

There are 21 helices in PDB entry 4Y40. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	38	67	Right-handed alpha
Helix 2	AA2	A	75	87	Right-handed alpha
Helix 3	AA3	A	91	102	Right-handed alpha
Helix 4	AA4	A	108	124	Right-handed alpha
Helix 5	AA5	A	147	159	Right-handed alpha
Helix 6	AA6	A	169	185	Right-handed alpha
Helix 7	AA7	A	279	287	Right-handed alpha
Helix 8	AA8	A	288	298	Right-handed alpha
Helix 9	AA9	A	319	323	Right-handed alpha
Helix 10	AB1	A	324	327	Right-handed 310
Helix 11	AB2	A	329	333	Right-handed 310
Helix 12	AB3	B	38	67	Right-handed alpha
Helix 13	AB4	B	75	87	Right-handed alpha
Helix 14	AB5	B	91	102	Right-handed alpha
Helix 15	AB6	B	108	124	Right-handed alpha
Helix 16	AB7	B	147	159	Right-handed alpha
Helix 17	AB8	B	169	185	Right-handed alpha
Helix 18	AB9	B	282	286	Right-handed alpha
Helix 19	AC1	B	288	297	Right-handed alpha
Helix 20	AC2	B	319	325	Right-handed alpha
Helix 21	AC3	B	329	333	Right-handed 310

There are 8 sheets in PDB entry 4Y40. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 7 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	72	74	first strand
Strand 2	A	401	408	anti-parallel
Strand 3	A	390	396	anti-parallel
Strand 4	A	268	275	anti-parallel
Strand 5	A	257	263	anti-parallel
Strand 6	A	235	252	anti-parallel
Strand 7	A	224	229	anti-parallel

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There are 8 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	72	74	first strand
Strand 2	A	401	408	anti-parallel
Strand 3	A	390	396	anti-parallel
Strand 4	A	268	275	anti-parallel
Strand 5	A	257	263	anti-parallel
Strand 6	A	235	252	anti-parallel
Strand 7	A	300	309	anti-parallel
Strand 8	A	382	385	parallel

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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	125	126	first strand
Strand 2	A	130	141	anti-parallel
Strand 3	A	161	165	parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	125	126	first strand
Strand 2	A	130	141	anti-parallel
Strand 3	A	202	212	anti-parallel
Strand 4	A	351	360	parallel
Strand 5	A	311	318	anti-parallel

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There are 7 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	72	74	first strand
Strand 2	B	401	408	anti-parallel
Strand 3	B	390	396	anti-parallel
Strand 4	B	268	275	anti-parallel
Strand 5	B	257	263	anti-parallel
Strand 6	B	236	252	anti-parallel
Strand 7	B	224	228	anti-parallel

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There are 8 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	72	74	first strand
Strand 2	B	401	408	anti-parallel
Strand 3	B	390	396	anti-parallel
Strand 4	B	268	275	anti-parallel
Strand 5	B	257	263	anti-parallel
Strand 6	B	236	252	anti-parallel
Strand 7	B	300	309	anti-parallel
Strand 8	B	384	385	parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	125	126	first strand
Strand 2	B	130	141	anti-parallel
Strand 3	B	161	165	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	125	126	first strand
Strand 2	B	130	141	anti-parallel
Strand 3	B	202	212	anti-parallel
Strand 4	B	351	360	parallel
Strand 5	B	311	318	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: 4Y40

Analysis of interatomic Contacts of Structural Units in PDB entry:
4Y40