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

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 5BPD entry

There are 6 chains in PDB entry 5BPD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 2	VAL 264
B	SER 2	LYS 263
C	SER 2	VAL 264
D	MET 1	GLU 262
E	T 1	A 21
F	T 1	A 21

There are 48 helices in PDB entry 5BPD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2	14	Right-handed alpha
Helix 2	AA2	A	17	31	Right-handed alpha
Helix 3	AA3	A	34	41	Right-handed alpha
Helix 4	AA4	A	45	47	Right-handed 310
Helix 5	AA5	A	48	59	Right-handed alpha
Helix 6	AA6	A	76	111	Right-handed alpha
Helix 7	AA7	A	131	146	Right-handed alpha
Helix 8	AA8	A	162	172	Right-handed alpha
Helix 9	AA9	A	183	188	Right-handed 310
Helix 10	AB1	A	192	199	Right-handed alpha
Helix 11	AB2	A	227	233	Right-handed alpha
Helix 12	AB3	A	243	259	Right-handed alpha
Helix 13	AB4	B	3	14	Right-handed alpha
Helix 14	AB5	B	17	31	Right-handed alpha
Helix 15	AB6	B	34	42	Right-handed alpha
Helix 16	AB7	B	45	47	Right-handed 310
Helix 17	AB8	B	48	59	Right-handed alpha
Helix 18	AB9	B	76	111	Right-handed alpha
Helix 19	AC1	B	131	146	Right-handed alpha
Helix 20	AC2	B	162	172	Right-handed alpha
Helix 21	AC3	B	183	188	Right-handed 310
Helix 22	AC4	B	193	199	Right-handed alpha
Helix 23	AC5	B	227	233	Right-handed alpha
Helix 24	AC6	B	243	259	Right-handed alpha
Helix 25	AC7	C	3	14	Right-handed alpha
Helix 26	AC8	C	17	31	Right-handed alpha
Helix 27	AC9	C	34	42	Right-handed alpha
Helix 28	AD1	C	45	59	Right-handed alpha
Helix 29	AD2	C	76	111	Right-handed alpha
Helix 30	AD3	C	132	134	Right-handed 310
Helix 31	AD4	C	135	146	Right-handed alpha
Helix 32	AD5	C	162	172	Right-handed alpha
Helix 33	AD6	C	183	189	Right-handed 310
Helix 34	AD7	C	191	199	Right-handed alpha
Helix 35	AD8	C	227	233	Right-handed alpha
Helix 36	AD9	C	243	259	Right-handed alpha
Helix 37	AE1	D	2	14	Right-handed alpha
Helix 38	AE2	D	17	31	Right-handed alpha
Helix 39	AE3	D	34	42	Right-handed alpha
Helix 40	AE4	D	45	59	Right-handed alpha
Helix 41	AE5	D	76	111	Right-handed alpha
Helix 42	AE6	D	132	134	Right-handed 310
Helix 43	AE7	D	135	146	Right-handed alpha
Helix 44	AE8	D	162	172	Right-handed alpha
Helix 45	AE9	D	183	189	Right-handed 310
Helix 46	AF1	D	191	199	Right-handed alpha
Helix 47	AF2	D	227	233	Right-handed alpha
Helix 48	AF3	D	243	259	Right-handed alpha

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

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	62	65	first strand
Strand 2	A	71	74	anti-parallel

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There are 8 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	126	129	first strand
Strand 2	A	238	242	anti-parallel
Strand 3	A	220	224	anti-parallel
Strand 4	A	214	217	anti-parallel
Strand 5	A	149	154	anti-parallel
Strand 6	A	175	181	parallel
Strand 7	A	203	207	parallel
Strand 8	A	262	263	anti-parallel

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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	B	62	65	first strand
Strand 2	B	71	74	anti-parallel

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There are 7 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	126	129	first strand
Strand 2	B	238	242	anti-parallel
Strand 3	B	220	224	anti-parallel
Strand 4	B	214	217	anti-parallel
Strand 5	B	149	154	anti-parallel
Strand 6	B	175	181	parallel
Strand 7	B	203	207	parallel

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There are 2 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	62	64	first strand
Strand 2	C	72	74	anti-parallel

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There are 7 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	126	130	first strand
Strand 2	C	237	242	anti-parallel
Strand 3	C	220	224	anti-parallel
Strand 4	C	214	217	anti-parallel
Strand 5	C	149	154	anti-parallel
Strand 6	C	175	181	parallel
Strand 7	C	203	207	parallel

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There are 2 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	62	64	first strand
Strand 2	D	72	74	anti-parallel

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There are 7 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	126	130	first strand
Strand 2	D	237	242	anti-parallel
Strand 3	D	220	224	anti-parallel
Strand 4	D	214	217	anti-parallel
Strand 5	D	149	154	anti-parallel
Strand 6	D	175	181	parallel
Strand 7	D	203	207	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: 5BPD

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