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

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 5JNA entry

There are 4 chains in PDB entry 5JNA (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 1	SER 259
B	HIS 4	SER 259
C	SER 3	SER 259
D	HIS 4	SER 259

There are 39 helices in PDB entry 5JNA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	7	11	Right-handed alpha
Helix 2	AA2	A	12	16	Right-handed 310
Helix 3	AA3	A	34	38	Right-handed 310
Helix 4	AA4	A	154	156	Right-handed 310
Helix 5	AA5	A	157	164	Right-handed alpha
Helix 6	AA6	A	165	167	Right-handed 310
Helix 7	AA7	A	181	185	Right-handed 310
Helix 8	AA8	A	187	189	Right-handed 310
Helix 9	AA9	A	220	229	Right-handed alpha
Helix 10	AB1	B	7	11	Right-handed alpha
Helix 11	AB2	B	12	16	Right-handed 310
Helix 12	AB3	B	20	25	Right-handed 310
Helix 13	AB4	B	34	38	Right-handed 310
Helix 14	AB5	B	154	156	Right-handed 310
Helix 15	AB6	B	157	164	Right-handed alpha
Helix 16	AB7	B	165	167	Right-handed 310
Helix 17	AB8	B	180	185	Right-handed alpha
Helix 18	AB9	B	187	189	Right-handed 310
Helix 19	AC1	B	220	229	Right-handed alpha
Helix 20	AC2	C	7	11	Right-handed alpha
Helix 21	AC3	C	12	16	Right-handed 310
Helix 22	AC4	C	130	135	Right-handed alpha
Helix 23	AC5	C	136	139	Right-handed 310
Helix 24	AC6	C	154	156	Right-handed 310
Helix 25	AC7	C	157	164	Right-handed alpha
Helix 26	AC8	C	165	167	Right-handed 310
Helix 27	AC9	C	181	185	Right-handed 310
Helix 28	AD1	C	187	189	Right-handed 310
Helix 29	AD2	C	220	229	Right-handed alpha
Helix 30	AD3	D	7	11	Right-handed alpha
Helix 31	AD4	D	12	16	Right-handed 310
Helix 32	AD5	D	130	136	Right-handed alpha
Helix 33	AD6	D	137	139	Right-handed 310
Helix 34	AD7	D	154	156	Right-handed 310
Helix 35	AD8	D	157	164	Right-handed alpha
Helix 36	AD9	D	165	167	Right-handed 310
Helix 37	AE1	D	181	185	Right-handed 310
Helix 38	AE2	D	187	189	Right-handed 310
Helix 39	AE3	D	220	229	Right-handed alpha

There are 12 sheets in PDB entry 5JNA. 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 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	32	33	first strand
Strand 2	A	108	109	parallel

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There are 10 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	39	40	first strand
Strand 2	A	257	258	parallel
Strand 3	A	191	196	anti-parallel
Strand 4	A	207	212	anti-parallel
Strand 5	A	141	151	parallel
Strand 6	A	116	124	anti-parallel
Strand 7	A	88	97	anti-parallel
Strand 8	A	66	69	anti-parallel
Strand 9	A	58	61	anti-parallel
Strand 10	A	172	175	anti-parallel

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There are 6 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	47	50	first strand
Strand 2	A	78	81	anti-parallel
Strand 3	A	88	97	anti-parallel
Strand 4	A	116	124	anti-parallel
Strand 5	A	141	151	anti-parallel
Strand 6	A	216	219	parallel

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There are 2 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	32	33	first strand
Strand 2	B	108	109	parallel

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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	B	39	40	first strand
Strand 2	B	257	258	parallel
Strand 3	B	191	196	anti-parallel
Strand 4	B	207	212	anti-parallel
Strand 5	B	141	151	parallel
Strand 6	B	116	124	anti-parallel
Strand 7	B	88	97	anti-parallel
Strand 8	B	66	69	anti-parallel
Strand 9	B	58	61	anti-parallel
Strand 10	B	172	175	anti-parallel

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There are 6 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	47	50	first strand
Strand 2	B	78	81	anti-parallel
Strand 3	B	88	97	anti-parallel
Strand 4	B	116	124	anti-parallel
Strand 5	B	141	151	anti-parallel
Strand 6	B	216	219	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	C	32	33	first strand
Strand 2	C	108	109	parallel

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There are 10 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	39	40	first strand
Strand 2	C	257	258	parallel
Strand 3	C	191	196	anti-parallel
Strand 4	C	207	212	anti-parallel
Strand 5	C	141	151	parallel
Strand 6	C	116	124	anti-parallel
Strand 7	C	88	97	anti-parallel
Strand 8	C	66	69	anti-parallel
Strand 9	C	58	61	anti-parallel
Strand 10	C	172	175	anti-parallel

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There are 6 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	47	50	first strand
Strand 2	C	78	81	anti-parallel
Strand 3	C	88	97	anti-parallel
Strand 4	C	116	124	anti-parallel
Strand 5	C	141	151	anti-parallel
Strand 6	C	216	219	parallel

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There are 2 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	32	33	first strand
Strand 2	D	108	109	parallel

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There are 10 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	39	40	first strand
Strand 2	D	257	258	parallel
Strand 3	D	191	196	anti-parallel
Strand 4	D	207	212	anti-parallel
Strand 5	D	141	151	parallel
Strand 6	D	116	124	anti-parallel
Strand 7	D	88	97	anti-parallel
Strand 8	D	66	69	anti-parallel
Strand 9	D	58	61	anti-parallel
Strand 10	D	172	175	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	47	50	first strand
Strand 2	D	78	81	anti-parallel
Strand 3	D	88	97	anti-parallel
Strand 4	D	116	124	anti-parallel
Strand 5	D	141	151	anti-parallel
Strand 6	D	216	219	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: 5JNA

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