Analysis of interatomic Contacts of Structural Units in PDB entry:
5J09

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 5J09 entry

There are 10 chains in PDB entry 5J09 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 46	ARG 238
B	ARG 46	GLN 239
C	ARG 46	GLN 239
D	ARG 46	GLN 239
E	ARG 46	GLN 239
F	ARG 46	GLN 239
G	ARG 46	GLN 239
H	ARG 46	GLN 239
I	ARG 46	GLN 239
J	ARG 46	GLN 239

There are 45 helices in PDB entry 5J09. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	80	85	Right-handed alpha
Helix 2	AA2	A	130	137	Right-handed 310
Helix 3	AA3	A	190	194	Right-handed alpha
Helix 4	AA4	A	205	209	Right-handed 310
Helix 5	AA5	B	80	85	Right-handed 310
Helix 6	AA6	B	90	94	Right-handed 310
Helix 7	AA7	B	130	137	Right-handed 310
Helix 8	AA8	B	190	194	Right-handed alpha
Helix 9	AA9	C	80	84	Right-handed 310
Helix 10	AB1	C	90	94	Right-handed 310
Helix 11	AB2	C	130	137	Right-handed 310
Helix 12	AB3	C	190	194	Right-handed alpha
Helix 13	AB4	D	80	85	Right-handed alpha
Helix 14	AB5	D	90	94	Right-handed 310
Helix 15	AB6	D	130	137	Right-handed 310
Helix 16	AB7	D	190	194	Right-handed alpha
Helix 17	AB8	D	205	209	Right-handed 310
Helix 18	AB9	E	80	85	Right-handed 310
Helix 19	AC1	E	90	94	Right-handed 310
Helix 20	AC2	E	130	136	Right-handed 310
Helix 21	AC3	E	190	194	Right-handed alpha
Helix 22	AC4	E	205	209	Right-handed 310
Helix 23	AC5	F	80	85	Right-handed alpha
Helix 24	AC6	F	90	94	Right-handed 310
Helix 25	AC7	F	130	137	Right-handed 310
Helix 26	AC8	F	190	194	Right-handed alpha
Helix 27	AC9	F	205	209	Right-handed 310
Helix 28	AD1	G	80	85	Right-handed 310
Helix 29	AD2	G	90	94	Right-handed 310
Helix 30	AD3	G	130	137	Right-handed 310
Helix 31	AD4	G	190	194	Right-handed alpha
Helix 32	AD5	G	205	209	Right-handed 310
Helix 33	AD6	H	80	85	Right-handed alpha
Helix 34	AD7	H	90	94	Right-handed 310
Helix 35	AD8	H	130	137	Right-handed 310
Helix 36	AD9	H	190	194	Right-handed alpha
Helix 37	AE1	I	80	85	Right-handed 310
Helix 38	AE2	I	90	94	Right-handed 310
Helix 39	AE3	I	130	137	Right-handed 310
Helix 40	AE4	I	190	194	Right-handed alpha
Helix 41	AE5	J	80	85	Right-handed 310
Helix 42	AE6	J	90	94	Right-handed 310
Helix 43	AE7	J	130	137	Right-handed 310
Helix 44	AE8	J	190	194	Right-handed alpha
Helix 45	AE9	J	205	209	Right-handed 310

There are 24 sheets in PDB entry 5J09. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6,

There are 8 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	162	166	first strand
Strand 2	A	98	111	anti-parallel
Strand 3	A	225	238	anti-parallel
Strand 4	A	48	60	anti-parallel
Strand 5	F	48	60	anti-parallel
Strand 6	F	225	238	anti-parallel
Strand 7	F	98	110	anti-parallel
Strand 8	F	162	166	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	196	197	first strand
Strand 2	A	98	111	anti-parallel
Strand 3	A	225	238	anti-parallel
Strand 4	A	48	60	anti-parallel
Strand 5	F	48	60	anti-parallel
Strand 6	F	225	238	anti-parallel
Strand 7	F	98	110	anti-parallel
Strand 8	F	196	197	anti-parallel

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There are 4 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	72	79	first strand
Strand 2	A	211	219	anti-parallel
Strand 3	A	122	127	anti-parallel
Strand 4	A	154	157	anti-parallel

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There are 8 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	162	166	first strand
Strand 2	B	98	111	anti-parallel
Strand 3	B	225	238	anti-parallel
Strand 4	B	47	60	anti-parallel
Strand 5	E	47	60	anti-parallel
Strand 6	E	225	238	anti-parallel
Strand 7	E	98	111	anti-parallel
Strand 8	E	162	166	anti-parallel

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There are 8 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	196	197	first strand
Strand 2	B	98	111	anti-parallel
Strand 3	B	225	238	anti-parallel
Strand 4	B	47	60	anti-parallel
Strand 5	E	47	60	anti-parallel
Strand 6	E	225	238	anti-parallel
Strand 7	E	98	111	anti-parallel
Strand 8	E	196	197	anti-parallel

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There are 4 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	72	79	first strand
Strand 2	B	211	219	anti-parallel
Strand 3	B	122	127	anti-parallel
Strand 4	B	154	157	anti-parallel

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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	162	166	first strand
Strand 2	C	98	111	anti-parallel
Strand 3	C	225	238	anti-parallel
Strand 4	C	48	60	anti-parallel
Strand 5	D	47	60	anti-parallel
Strand 6	D	225	238	anti-parallel
Strand 7	D	98	110	anti-parallel
Strand 8	D	162	166	anti-parallel

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There are 8 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	196	197	first strand
Strand 2	C	98	111	anti-parallel
Strand 3	C	225	238	anti-parallel
Strand 4	C	48	60	anti-parallel
Strand 5	D	47	60	anti-parallel
Strand 6	D	225	238	anti-parallel
Strand 7	D	98	110	anti-parallel
Strand 8	D	196	197	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	72	79	first strand
Strand 2	C	211	219	anti-parallel
Strand 3	C	122	127	anti-parallel
Strand 4	C	154	157	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	72	79	first strand
Strand 2	D	211	219	anti-parallel
Strand 3	D	122	127	anti-parallel
Strand 4	D	154	157	anti-parallel

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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	E	72	79	first strand
Strand 2	E	211	219	anti-parallel
Strand 3	E	122	127	anti-parallel
Strand 4	E	154	157	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	72	79	first strand
Strand 2	F	211	219	anti-parallel
Strand 3	F	122	127	anti-parallel
Strand 4	F	154	157	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	47	60	first strand
Strand 2	G	225	238	anti-parallel
Strand 3	G	98	111	anti-parallel
Strand 4	G	162	166	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	47	60	first strand
Strand 2	G	225	238	anti-parallel
Strand 3	G	98	111	anti-parallel
Strand 4	G	196	197	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	72	79	first strand
Strand 2	G	211	219	anti-parallel
Strand 3	G	122	127	anti-parallel
Strand 4	G	154	157	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	48	60	first strand
Strand 2	H	225	238	anti-parallel
Strand 3	H	98	111	anti-parallel
Strand 4	H	162	166	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	48	60	first strand
Strand 2	H	225	238	anti-parallel
Strand 3	H	98	111	anti-parallel
Strand 4	H	196	197	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	72	79	first strand
Strand 2	H	211	219	anti-parallel
Strand 3	H	122	127	anti-parallel
Strand 4	H	154	157	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	47	60	first strand
Strand 2	I	225	238	anti-parallel
Strand 3	I	98	111	anti-parallel
Strand 4	I	162	166	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	47	60	first strand
Strand 2	I	225	238	anti-parallel
Strand 3	I	98	111	anti-parallel
Strand 4	I	196	197	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	72	79	first strand
Strand 2	I	211	219	anti-parallel
Strand 3	I	122	127	anti-parallel
Strand 4	I	154	157	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	47	60	first strand
Strand 2	J	225	238	anti-parallel
Strand 3	J	98	111	anti-parallel
Strand 4	J	162	166	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	47	60	first strand
Strand 2	J	225	238	anti-parallel
Strand 3	J	98	111	anti-parallel
Strand 4	J	196	197	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	72	79	first strand
Strand 2	J	211	219	anti-parallel
Strand 3	J	122	127	anti-parallel
Strand 4	J	154	157	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: 5J09

Analysis of interatomic Contacts of Structural Units in PDB entry:
5J09