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

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 5JMV entry

There are 8 chains in PDB entry 5JMV (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET -2	LYS 325
B	MET -2	LYS 325
C	PRO 0	ILE 324
D	ARG 5	VAL 82
E	ARG 5	VAL 82
F	ARG 5	ILE 80
G	ARG 5	GLU 81
H	ARG 5	TYR 24

There are 52 helices in PDB entry 5JMV. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	41	63	Right-handed alpha
Helix 2	AA2	A	64	68	Right-handed 310
Helix 3	AA3	A	79	97	Right-handed alpha
Helix 4	AA4	A	106	118	Right-handed alpha
Helix 5	AA5	A	153	163	Right-handed alpha
Helix 6	AA6	A	170	183	Right-handed alpha
Helix 7	AA7	A	199	213	Right-handed alpha
Helix 8	AA8	A	215	243	Right-handed alpha
Helix 9	AA9	A	251	255	Right-handed 310
Helix 10	AB1	A	256	270	Right-handed alpha
Helix 11	AB2	A	278	283	Right-handed alpha
Helix 12	AB3	A	285	299	Right-handed alpha
Helix 13	AB4	A	304	308	Right-handed 310
Helix 14	AB5	A	315	319	Right-handed 310
Helix 15	AB6	B	40	63	Right-handed alpha
Helix 16	AB7	B	64	68	Right-handed 310
Helix 17	AB8	B	79	97	Right-handed alpha
Helix 18	AB9	B	106	116	Right-handed alpha
Helix 19	AC1	B	153	163	Right-handed alpha
Helix 20	AC2	B	170	183	Right-handed alpha
Helix 21	AC3	B	199	213	Right-handed alpha
Helix 22	AC4	B	215	243	Right-handed alpha
Helix 23	AC5	B	251	255	Right-handed 310
Helix 24	AC6	B	256	270	Right-handed alpha
Helix 25	AC7	B	278	283	Right-handed alpha
Helix 26	AC8	B	285	299	Right-handed alpha
Helix 27	AC9	B	304	308	Right-handed 310
Helix 28	AD1	B	315	319	Right-handed 310
Helix 29	AD2	C	41	63	Right-handed alpha
Helix 30	AD3	C	64	68	Right-handed 310
Helix 31	AD4	C	79	97	Right-handed alpha
Helix 32	AD5	C	106	116	Right-handed alpha
Helix 33	AD6	C	153	163	Right-handed alpha
Helix 34	AD7	C	170	183	Right-handed alpha
Helix 35	AD8	C	199	213	Right-handed alpha
Helix 36	AD9	C	215	243	Right-handed alpha
Helix 37	AE1	C	251	255	Right-handed 310
Helix 38	AE2	C	256	270	Right-handed alpha
Helix 39	AE3	C	278	283	Right-handed alpha
Helix 40	AE4	C	285	299	Right-handed alpha
Helix 41	AE5	C	304	308	Right-handed 310
Helix 42	AE6	C	315	319	Right-handed 310
Helix 43	AE7	D	16	32	Right-handed alpha
Helix 44	AE8	D	58	81	Right-handed alpha
Helix 45	AE9	E	16	30	Right-handed alpha
Helix 46	AF1	E	58	81	Right-handed alpha
Helix 47	AF2	F	16	32	Right-handed alpha
Helix 48	AF3	F	58	80	Right-handed alpha
Helix 49	AF4	G	16	30	Right-handed alpha
Helix 50	AF5	G	58	81	Right-handed alpha
Helix 51	AF6	H	16	29	Right-handed alpha
Helix 52	AF7	H	58	81	Right-handed alpha

There are 10 sheets in PDB entry 5JMV. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 5 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	24	30	first strand
Strand 2	A	13	18	anti-parallel
Strand 3	A	3	7	anti-parallel
Strand 4	A	70	76	parallel
Strand 5	A	101	105	parallel

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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	142	148	first strand
Strand 2	A	133	139	anti-parallel
Strand 3	A	123	128	anti-parallel
Strand 4	A	246	250	parallel
Strand 5	A	273	275	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	A	192	193	first strand
Strand 2	A	196	197	anti-parallel

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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	24	30	first strand
Strand 2	B	13	18	anti-parallel
Strand 3	B	3	7	anti-parallel
Strand 4	B	70	76	parallel
Strand 5	B	101	105	parallel

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There are 7 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	192	193	first strand
Strand 2	B	196	198	anti-parallel
Strand 3	B	142	150	parallel
Strand 4	B	133	139	anti-parallel
Strand 5	B	124	128	anti-parallel
Strand 6	B	246	250	parallel
Strand 7	B	273	275	parallel

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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	24	30	first strand
Strand 2	C	13	18	anti-parallel
Strand 3	C	3	7	anti-parallel
Strand 4	C	70	76	parallel
Strand 5	C	101	105	parallel

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There are 7 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	192	193	first strand
Strand 2	C	196	198	anti-parallel
Strand 3	C	142	150	parallel
Strand 4	C	133	139	anti-parallel
Strand 5	C	124	128	anti-parallel
Strand 6	C	246	250	parallel
Strand 7	C	273	275	parallel

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There are 6 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	40	46	first strand
Strand 2	D	49	56	anti-parallel
Strand 3	D	6	13	anti-parallel
Strand 4	E	6	13	anti-parallel
Strand 5	E	49	56	anti-parallel
Strand 6	E	40	46	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	F	40	46	first strand
Strand 2	F	49	56	anti-parallel
Strand 3	F	6	13	anti-parallel
Strand 4	G	6	13	anti-parallel
Strand 5	G	49	56	anti-parallel
Strand 6	G	40	46	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	6	11	first strand
Strand 2	H	51	56	anti-parallel
Strand 3	H	41	43	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: 5JMV

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