Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP5

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 8UP5 entry

There are 5 chains in PDB entry 8UP5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
T	G 0	A 76
B	ALA 345	TYR 533
K	PRO 0	ILE 324
C	MET 3	LYS 148
P	GLN 7	ILE 80

There are 29 helices in PDB entry 8UP5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	369	391	Right-handed alpha
Helix 2	AA2	B	392	395	Right-handed 310
Helix 3	AA3	B	420	425	Right-handed alpha
Helix 4	AA4	B	429	445	Right-handed alpha
Helix 5	AA5	B	476	496	Right-handed alpha
Helix 6	AA6	B	498	514	Right-handed alpha
Helix 7	AA7	B	516	529	Right-handed alpha
Helix 8	AA8	K	43	63	Right-handed alpha
Helix 9	AA9	K	79	98	Right-handed alpha
Helix 10	AB1	K	106	118	Right-handed alpha
Helix 11	AB2	K	153	165	Right-handed alpha
Helix 12	AB3	K	171	182	Right-handed alpha
Helix 13	AB4	K	198	212	Right-handed alpha
Helix 14	AB5	K	215	243	Right-handed alpha
Helix 15	AB6	K	251	255	Right-handed 310
Helix 16	AB7	K	256	271	Right-handed alpha
Helix 17	AB8	K	278	283	Right-handed alpha
Helix 18	AB9	K	285	299	Right-handed alpha
Helix 19	AC1	K	304	308	Right-handed 310
Helix 20	AC2	C	18	24	Right-handed alpha
Helix 21	AC3	C	37	51	Right-handed alpha
Helix 22	AC4	C	57	68	Right-handed alpha
Helix 23	AC5	C	71	80	Right-handed alpha
Helix 24	AC6	C	92	104	Right-handed alpha
Helix 25	AC7	C	109	112	Right-handed 310
Helix 26	AC8	C	115	127	Right-handed alpha
Helix 27	AC9	C	133	144	Right-handed alpha
Helix 28	AD1	P	16	34	Right-handed alpha
Helix 29	AD2	P	61	80	Right-handed alpha

There are 6 sheets in PDB entry 8UP5. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	350	352	first strand
Strand 2	B	355	361	anti-parallel
Strand 3	B	410	414	anti-parallel
Strand 4	B	403	405	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	B	458	459	first strand
Strand 2	B	463	464	anti-parallel

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There are 5 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	24	31	first strand
Strand 2	K	12	19	anti-parallel
Strand 3	K	2	7	anti-parallel
Strand 4	K	70	76	parallel
Strand 5	K	101	105	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	K	143	148	first strand
Strand 2	K	134	138	anti-parallel
Strand 3	K	124	127	anti-parallel
Strand 4	K	246	250	parallel
Strand 5	K	273	275	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	C	28	31	first strand
Strand 2	C	84	90	anti-parallel
Strand 3	C	7	14	anti-parallel
Strand 4	C	106	107	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	8	13	first strand
Strand 2	P	49	55	anti-parallel
Strand 3	P	40	46	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: 8UP5

Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP5