Analysis of interatomic Contacts of Structural Units in PDB entry:
28YJ

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 28YJ entry

There are 4 chains in PDB entry 28YJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 44	THR 341
B	LYS 202	THR 341
C	SER 44	PHE 213
D	SER 44	TYR 187

There are 8 helices in PDB entry 28YJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	98	104	Right-handed alpha
Helix 2	AA2	A	136	144	Right-handed alpha
Helix 3	AA3	A	231	235	Right-handed 310
Helix 4	AA4	B	231	235	Right-handed 310
Helix 5	AA5	C	98	104	Right-handed alpha
Helix 6	AA6	C	137	142	Right-handed alpha
Helix 7	AA7	D	98	104	Right-handed alpha
Helix 8	AA8	D	136	144	Right-handed alpha

There are 18 sheets in PDB entry 28YJ. 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, AB8, AB9,

There are 2 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	57	61	first strand
Strand 2	A	64	68	anti-parallel

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There are 2 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	73	74	first strand
Strand 2	A	80	81	anti-parallel

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There are 4 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	83	87	first strand
Strand 2	A	92	97	anti-parallel
Strand 3	A	129	135	anti-parallel
Strand 4	A	121	124	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	A	146	149	first strand
Strand 2	A	153	160	anti-parallel
Strand 3	A	177	186	anti-parallel
Strand 4	B	203	211	parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	188	192	first strand
Strand 2	B	319	327	anti-parallel
Strand 3	B	258	267	anti-parallel
Strand 4	B	278	279	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	202	211	first strand
Strand 2	C	176	186	parallel
Strand 3	C	153	160	anti-parallel
Strand 4	C	146	149	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	A	215	220	first strand
Strand 2	A	241	248	anti-parallel
Strand 3	A	302	308	anti-parallel
Strand 4	A	292	293	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	278	279	first strand
Strand 2	A	258	267	anti-parallel
Strand 3	A	319	327	anti-parallel
Strand 4	C	188	192	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	311	312	first strand
Strand 2	D	171	172	anti-parallel

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There are 4 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	215	220	first strand
Strand 2	B	241	248	anti-parallel
Strand 3	B	302	308	anti-parallel
Strand 4	B	292	293	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	311	312	first strand
Strand 2	C	171	172	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	57	61	first strand
Strand 2	C	64	68	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	73	74	first strand
Strand 2	C	80	81	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	83	87	first strand
Strand 2	C	92	97	anti-parallel
Strand 3	C	129	135	anti-parallel
Strand 4	C	121	124	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	C	202	211	first strand
Strand 2	D	176	186	parallel
Strand 3	D	153	160	anti-parallel
Strand 4	D	146	149	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	61	first strand
Strand 2	D	64	68	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	73	74	first strand
Strand 2	D	80	81	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	83	87	first strand
Strand 2	D	92	97	anti-parallel
Strand 3	D	129	135	anti-parallel
Strand 4	D	121	124	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: 28YJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
28YJ