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

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 5UPB entry

There are 3 chains in PDB entry 5UPB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 4	LEU 259
B	ALA 4	LEU 259
C	ALA 2	THR 165

There are 24 helices in PDB entry 5UPB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	36	44	Right-handed alpha
Helix 2	AA2	A	71	75	Right-handed 310
Helix 3	AA3	A	76	79	Right-handed 310
Helix 4	AA4	A	108	118	Right-handed alpha
Helix 5	AA5	A	171	175	Right-handed 310
Helix 6	AA6	A	229	234	Right-handed 310
Helix 7	AA7	B	36	42	Right-handed alpha
Helix 8	AA8	B	71	75	Right-handed 310
Helix 9	AA9	B	76	79	Right-handed 310
Helix 10	AB1	B	108	118	Right-handed alpha
Helix 11	AB2	B	171	175	Right-handed 310
Helix 12	AB3	B	229	234	Right-handed 310
Helix 13	AB4	C	36	42	Right-handed alpha
Helix 14	AB5	C	71	75	Right-handed 310
Helix 15	AB6	C	76	79	Right-handed 310
Helix 16	AB7	C	108	118	Right-handed alpha
Helix 17	AB8	C	171	175	Right-handed 310
Helix 18	AB9	C	229	234	Right-handed 310
Helix 19	AC1	D	36	44	Right-handed alpha
Helix 20	AC2	D	71	75	Right-handed 310
Helix 21	AC3	D	76	79	Right-handed 310
Helix 22	AC4	D	108	118	Right-handed alpha
Helix 23	AC5	D	171	175	Right-handed 310
Helix 24	AC6	D	229	234	Right-handed 310

There are 8 sheets in PDB entry 5UPB. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 10 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	122	124	first strand
Strand 2	A	96	106	parallel
Strand 3	A	81	93	anti-parallel
Strand 4	A	49	66	anti-parallel
Strand 5	A	22	35	anti-parallel
Strand 6	A	236	250	anti-parallel
Strand 7	A	207	222	anti-parallel
Strand 8	A	157	169	anti-parallel
Strand 9	A	147	154	anti-parallel
Strand 10	A	126	130	anti-parallel

Back to list of sheets
Back to top of page

There are 5 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	122	124	first strand
Strand 2	A	96	106	parallel
Strand 3	A	180	187	parallel
Strand 4	A	197	203	anti-parallel
Strand 5	A	254	258	anti-parallel

Back to list of sheets
Back to top of page

There are 10 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	122	124	first strand
Strand 2	B	96	106	parallel
Strand 3	B	81	93	anti-parallel
Strand 4	B	49	66	anti-parallel
Strand 5	B	22	34	anti-parallel
Strand 6	B	237	250	anti-parallel
Strand 7	B	207	222	anti-parallel
Strand 8	B	157	169	anti-parallel
Strand 9	B	147	154	anti-parallel
Strand 10	B	126	130	anti-parallel

Back to list of sheets
Back to top of page

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	B	122	124	first strand
Strand 2	B	96	106	parallel
Strand 3	B	180	187	parallel
Strand 4	B	197	204	anti-parallel
Strand 5	B	254	258	anti-parallel

Back to list of sheets
Back to top of page

There are 10 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	122	124	first strand
Strand 2	C	96	106	parallel
Strand 3	C	81	93	anti-parallel
Strand 4	C	49	66	anti-parallel
Strand 5	C	22	34	anti-parallel
Strand 6	C	237	250	anti-parallel
Strand 7	C	205	222	anti-parallel
Strand 8	C	157	169	anti-parallel
Strand 9	C	147	154	anti-parallel
Strand 10	C	126	130	anti-parallel

Back to list of sheets
Back to top of page

There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	122	124	first strand
Strand 2	C	96	106	parallel
Strand 3	C	180	187	parallel
Strand 4	C	197	203	anti-parallel
Strand 5	C	254	258	anti-parallel

Back to list of sheets
Back to top of page

There are 10 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	122	124	first strand
Strand 2	D	97	106	parallel
Strand 3	D	81	92	anti-parallel
Strand 4	D	49	66	anti-parallel
Strand 5	D	22	35	anti-parallel
Strand 6	D	236	250	anti-parallel
Strand 7	D	206	222	anti-parallel
Strand 8	D	157	169	anti-parallel
Strand 9	D	147	154	anti-parallel
Strand 10	D	126	130	anti-parallel

Back to list of sheets
Back to top of page

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	D	122	124	first strand
Strand 2	D	97	106	parallel
Strand 3	D	180	187	parallel
Strand 4	D	197	202	anti-parallel
Strand 5	D	254	257	anti-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: 5UPB

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