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

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 8UPM entry

There are 2 chains in PDB entry 8UPM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 9	ASN 511
B	GLU 9	ASN 511

There are 40 helices in PDB entry 8UPM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	46	52	Right-handed alpha
Helix 2	AA2	A	54	59	Right-handed alpha
Helix 3	AA3	A	62	67	Right-handed alpha
Helix 4	AA4	A	68	74	Right-handed alpha
Helix 5	AA5	A	74	82	Right-handed alpha
Helix 6	AA6	A	122	130	Right-handed alpha
Helix 7	AA7	A	131	134	Right-handed 310
Helix 8	AA8	A	137	154	Right-handed alpha
Helix 9	AA9	A	189	193	Right-handed 310
Helix 10	AB1	A	194	204	Right-handed alpha
Helix 11	AB2	A	242	253	Right-handed alpha
Helix 12	AB3	A	283	321	Right-handed alpha
Helix 13	AB4	A	322	327	Right-handed alpha
Helix 14	AB5	A	332	340	Right-handed alpha
Helix 15	AB6	A	340	346	Right-handed alpha
Helix 16	AB7	A	369	381	Right-handed alpha
Helix 17	AB8	A	436	440	Right-handed 310
Helix 18	AB9	A	460	467	Right-handed alpha
Helix 19	AC1	A	475	488	Right-handed alpha
Helix 20	AC2	A	489	511	Right-handed alpha
Helix 21	AC3	B	46	52	Right-handed alpha
Helix 22	AC4	B	55	59	Right-handed 310
Helix 23	AC5	B	62	67	Right-handed alpha
Helix 24	AC6	B	68	74	Right-handed alpha
Helix 25	AC7	B	74	82	Right-handed alpha
Helix 26	AC8	B	123	130	Right-handed alpha
Helix 27	AC9	B	131	134	Right-handed 310
Helix 28	AD1	B	137	154	Right-handed alpha
Helix 29	AD2	B	189	193	Right-handed 310
Helix 30	AD3	B	194	204	Right-handed alpha
Helix 31	AD4	B	242	253	Right-handed alpha
Helix 32	AD5	B	283	309	Right-handed alpha
Helix 33	AD6	B	311	326	Right-handed alpha
Helix 34	AD7	B	332	340	Right-handed alpha
Helix 35	AD8	B	369	381	Right-handed alpha
Helix 36	AD9	B	393	398	Right-handed alpha
Helix 37	AE1	B	399	403	Right-handed 310
Helix 38	AE2	B	461	467	Right-handed alpha
Helix 39	AE3	B	475	487	Right-handed alpha
Helix 40	AE4	B	490	508	Right-handed alpha

There are 9 sheets in PDB entry 8UPM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 5 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	42	43	first strand
Strand 2	A	29	33	anti-parallel
Strand 3	A	103	110	anti-parallel
Strand 4	A	92	100	anti-parallel
Strand 5	A	85	87	anti-parallel

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There are 6 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	187	188	first strand
Strand 2	A	169	176	anti-parallel
Strand 3	A	157	163	anti-parallel
Strand 4	A	267	276	anti-parallel
Strand 5	A	256	264	anti-parallel
Strand 6	A	206	209	anti-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	362	365	first strand
Strand 2	A	352	355	anti-parallel
Strand 3	A	424	427	anti-parallel

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There are 2 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	388	391	first strand
Strand 2	A	411	414	anti-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	B	29	33	first strand
Strand 2	B	103	110	anti-parallel
Strand 3	B	92	100	anti-parallel
Strand 4	B	83	87	anti-parallel

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There are 2 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	43	44	first strand
Strand 2	B	219	220	anti-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	169	170	first strand
Strand 2	B	157	163	anti-parallel
Strand 3	B	174	176	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	169	170	first strand
Strand 2	B	157	163	anti-parallel
Strand 3	B	267	276	anti-parallel
Strand 4	B	256	264	anti-parallel
Strand 5	B	206	208	anti-parallel

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There are 5 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	362	365	first strand
Strand 2	B	352	355	anti-parallel
Strand 3	B	423	428	anti-parallel
Strand 4	B	410	415	anti-parallel
Strand 5	B	388	391	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: 8UPM

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