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

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 5UPQ entry

There are 2 chains in PDB entry 5UPQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 0	PRO 513
B	GLN 2	PRO 513

There are 42 helices in PDB entry 5UPQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	5	17	Right-handed alpha
Helix 2	AA2	A	32	49	Right-handed alpha
Helix 3	AA3	A	64	77	Right-handed alpha
Helix 4	AA4	A	89	101	Right-handed alpha
Helix 5	AA5	A	112	124	Right-handed alpha
Helix 6	AA6	A	125	127	Right-handed 310
Helix 7	AA7	A	143	150	Right-handed alpha
Helix 8	AA8	A	185	200	Right-handed alpha
Helix 9	AA9	A	215	221	Right-handed alpha
Helix 10	AB1	A	222	229	Right-handed alpha
Helix 11	AB2	A	240	251	Right-handed alpha
Helix 12	AB3	A	259	270	Right-handed alpha
Helix 13	AB4	A	285	290	Right-handed 310
Helix 14	AB5	A	298	303	Right-handed alpha
Helix 15	AB6	A	304	308	Right-handed 310
Helix 16	AB7	A	314	317	Right-handed 310
Helix 17	AB8	A	374	382	Right-handed alpha
Helix 18	AB9	A	419	430	Right-handed alpha
Helix 19	AC1	A	463	472	Right-handed alpha
Helix 20	AC2	A	476	480	Right-handed 310
Helix 21	AC3	A	499	508	Right-handed alpha
Helix 22	AC4	B	5	17	Right-handed alpha
Helix 23	AC5	B	32	49	Right-handed alpha
Helix 24	AC6	B	64	78	Right-handed alpha
Helix 25	AC7	B	89	101	Right-handed alpha
Helix 26	AC8	B	112	124	Right-handed alpha
Helix 27	AC9	B	125	127	Right-handed 310
Helix 28	AD1	B	143	150	Right-handed alpha
Helix 29	AD2	B	185	200	Right-handed alpha
Helix 30	AD3	B	215	221	Right-handed alpha
Helix 31	AD4	B	222	230	Right-handed alpha
Helix 32	AD5	B	240	251	Right-handed alpha
Helix 33	AD6	B	259	271	Right-handed alpha
Helix 34	AD7	B	285	290	Right-handed 310
Helix 35	AD8	B	298	303	Right-handed alpha
Helix 36	AD9	B	304	308	Right-handed 310
Helix 37	AE1	B	314	317	Right-handed 310
Helix 38	AE2	B	374	382	Right-handed alpha
Helix 39	AE3	B	383	386	Right-handed 310
Helix 40	AE4	B	420	429	Right-handed alpha
Helix 41	AE5	B	463	468	Right-handed alpha
Helix 42	AE6	B	500	507	Right-handed alpha

There are 12 sheets in PDB entry 5UPQ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	28	31	first strand
Strand 2	A	21	25	anti-parallel
Strand 3	A	232	235	parallel
Strand 4	A	206	209	parallel
Strand 5	A	255	256	parallel

Back to list of sheets
Back to top of page

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	130	133	first strand
Strand 2	A	104	107	parallel
Strand 3	A	56	60	parallel
Strand 4	A	80	83	parallel
Strand 5	A	165	171	parallel
Strand 6	A	179	184	anti-parallel

Back to list of sheets
Back to top of page

There are 2 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	281	282	first strand
Strand 2	A	294	295	parallel

Back to list of sheets
Back to top of page

There are 3 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	310	313	first strand
Strand 2	A	318	322	anti-parallel
Strand 3	A	335	336	anti-parallel

Back to list of sheets
Back to top of page

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	341	345	first strand
Strand 2	A	358	363	anti-parallel
Strand 3	A	387	395	anti-parallel
Strand 4	A	401	406	anti-parallel

Back to list of sheets
Back to top of page

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	A	433	443	first strand
Strand 2	A	447	456	anti-parallel
Strand 3	A	483	487	parallel

Back to list of sheets
Back to top of page

There are 5 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	28	31	first strand
Strand 2	B	21	25	anti-parallel
Strand 3	B	232	235	parallel
Strand 4	B	206	209	parallel
Strand 5	B	255	256	parallel

Back to list of sheets
Back to top of page

There are 6 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	130	133	first strand
Strand 2	B	104	107	parallel
Strand 3	B	56	60	parallel
Strand 4	B	80	83	parallel
Strand 5	B	165	171	parallel
Strand 6	B	179	184	anti-parallel

Back to list of sheets
Back to top of page

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	B	281	282	first strand
Strand 2	B	294	295	parallel

Back to list of sheets
Back to top of page

There are 3 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	310	313	first strand
Strand 2	B	318	322	anti-parallel
Strand 3	B	335	336	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	341	345	first strand
Strand 2	B	358	363	anti-parallel
Strand 3	B	387	395	anti-parallel
Strand 4	B	401	406	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	433	437	first strand
Strand 2	B	453	456	anti-parallel
Strand 3	B	486	487	parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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