Analysis of interatomic Contacts of Structural Units in PDB entry:
2J9D

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 2J9D entry

There are 12 chains in PDB entry 2J9D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY -1	HIS 115
B	GLY -1	GLU 114
C	GLY -1	GLU 114
D	GLY -1	HIS 115
E	GLY -1	GLU 114
F	GLY -1	LEU 113
G	GLY -1	GLU 114
H	GLY -1	LEU 112
I	GLY -1	GLU 114
J	GLY -1	LEU 113
K	GLY -1	GLU 114
L	GLY -1	LEU 113

There are 47 helices in PDB entry 2J9D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	9	11	Right-handed 310
Helix 2	2	A	12	23	Right-handed alpha
Helix 3	3	A	69	82	Right-handed alpha
Helix 4	4	A	107	113	Right-handed alpha
Helix 5	5	B	9	11	Right-handed 310
Helix 6	6	B	12	23	Right-handed alpha
Helix 7	7	B	69	82	Right-handed alpha
Helix 8	8	B	108	113	Right-handed 310
Helix 9	9	C	9	11	Right-handed 310
Helix 10	10	C	12	23	Right-handed alpha
Helix 11	11	C	69	82	Right-handed alpha
Helix 12	12	C	108	113	Right-handed alpha
Helix 13	13	D	9	11	Right-handed 310
Helix 14	14	D	12	23	Right-handed alpha
Helix 15	15	D	69	82	Right-handed alpha
Helix 16	16	D	108	113	Right-handed alpha
Helix 17	17	E	9	11	Right-handed 310
Helix 18	18	E	12	23	Right-handed alpha
Helix 19	19	E	69	82	Right-handed alpha
Helix 20	20	E	108	113	Right-handed alpha
Helix 21	21	F	9	11	Right-handed 310
Helix 22	22	F	12	23	Right-handed alpha
Helix 23	23	F	69	82	Right-handed alpha
Helix 24	24	F	107	112	Right-handed alpha
Helix 25	25	G	9	11	Right-handed 310
Helix 26	26	G	12	23	Right-handed alpha
Helix 27	27	G	69	82	Right-handed alpha
Helix 28	28	G	108	113	Right-handed alpha
Helix 29	29	H	9	11	Right-handed 310
Helix 30	30	H	12	23	Right-handed alpha
Helix 31	31	H	69	82	Right-handed alpha
Helix 32	32	H	108	112	Right-handed 310
Helix 33	33	I	9	11	Right-handed 310
Helix 34	34	I	12	23	Right-handed alpha
Helix 35	35	I	69	82	Right-handed alpha
Helix 36	36	I	108	111	Right-handed 310
Helix 37	37	J	9	11	Right-handed 310
Helix 38	38	J	12	23	Right-handed alpha
Helix 39	39	J	69	82	Right-handed alpha
Helix 40	40	K	9	11	Right-handed 310
Helix 41	41	K	12	23	Right-handed alpha
Helix 42	42	K	69	82	Right-handed alpha
Helix 43	43	K	107	113	Right-handed alpha
Helix 44	44	L	9	11	Right-handed 310
Helix 45	45	L	12	23	Right-handed alpha
Helix 46	46	L	69	82	Right-handed alpha
Helix 47	47	L	108	113	Right-handed 310

There are 11 sheets in PDB entry 2J9D. Click on sheet of interest to get list of strands forming it: AA, AB, CA, A, DB, EA, FA, GA, GB, JA, JB,

There are 6 strands in AA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	98	101	first strand
Strand 2	B	90	96	anti-parallel
Strand 3	B	1	8	anti-parallel
Strand 4	B	56	66	anti-parallel
Strand 5	B	28	35	anti-parallel
Strand 6	A	29	36	anti-parallel

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There are 6 strands in AB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	98	101	first strand
Strand 2	B	90	96	anti-parallel
Strand 3	B	1	8	anti-parallel
Strand 4	B	56	66	anti-parallel
Strand 5	B	28	35	anti-parallel
Strand 6	C	29	36	parallel

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There are 2 strands in CA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	42	45	first strand
Strand 2	C	50	53	anti-parallel

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There are 6 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	101	first strand
Strand 2	E	90	96	anti-parallel
Strand 3	E	1	8	anti-parallel
Strand 4	E	56	66	anti-parallel
Strand 5	E	29	35	anti-parallel
Strand 6	D	29	35	anti-parallel

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There are 6 strands in DB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	101	first strand
Strand 2	E	90	96	anti-parallel
Strand 3	E	1	8	anti-parallel
Strand 4	E	56	66	anti-parallel
Strand 5	E	29	35	anti-parallel
Strand 6	F	29	36	parallel

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There are 2 strands in EA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	43	46	first strand
Strand 2	E	49	52	anti-parallel

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There are 2 strands in FA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	43	45	first strand
Strand 2	F	50	52	anti-parallel

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There are 6 strands in GA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	98	101	first strand
Strand 2	H	90	96	anti-parallel
Strand 3	H	1	8	anti-parallel
Strand 4	H	55	66	anti-parallel
Strand 5	H	28	36	anti-parallel
Strand 6	G	29	36	anti-parallel

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There are 6 strands in GB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	98	101	first strand
Strand 2	H	90	96	anti-parallel
Strand 3	H	1	8	anti-parallel
Strand 4	H	55	66	anti-parallel
Strand 5	H	28	36	anti-parallel
Strand 6	I	29	36	parallel

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There are 15 strands in JA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	98	101	first strand
Strand 2	K	90	96	anti-parallel
Strand 3	K	1	8	anti-parallel
Strand 4	K	57	66	anti-parallel
Strand 5	K	28	34	anti-parallel
Strand 6	K	98	101	first strand
Strand 7	L	90	96	anti-parallel
Strand 8	L	1	8	anti-parallel
Strand 9	L	56	66	anti-parallel
Strand 10	L	28	36	anti-parallel
Strand 11	L	98	101	first strand
Strand 12	J	90	96	anti-parallel
Strand 13	J	1	8	anti-parallel
Strand 14	J	56	66	anti-parallel
Strand 15	J	29	36	anti-parallel

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There are 2 strands in JB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	42	46	first strand
Strand 2	J	49	53	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: 2J9D

Analysis of interatomic Contacts of Structural Units in PDB entry:
2J9D