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

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 5YJJ entry

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

Chain ID	Initial residue	Terminal residue
A	LYS 5	ILE 545
B	LYS 5	ILE 545
C	LYS 5	ILE 545
D	LYS 5	ILE 545
E	LYS 5	ILE 545
F	LYS 5	ILE 545

There are 66 helices in PDB entry 5YJJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	67	70	Right-handed 310
Helix 2	AA2	A	87	100	Right-handed alpha
Helix 3	AA3	A	125	140	Right-handed alpha
Helix 4	AA4	A	166	172	Right-handed alpha
Helix 5	AA5	A	197	227	Right-handed alpha
Helix 6	AA6	A	298	315	Right-handed alpha
Helix 7	AA7	A	387	392	Right-handed 310
Helix 8	AA8	A	401	417	Right-handed alpha
Helix 9	AA9	A	441	457	Right-handed alpha
Helix 10	AB1	A	486	493	Right-handed alpha
Helix 11	AB2	A	519	545	Right-handed alpha
Helix 12	AB3	B	67	70	Right-handed 310
Helix 13	AB4	B	87	100	Right-handed alpha
Helix 14	AB5	B	125	140	Right-handed alpha
Helix 15	AB6	B	166	172	Right-handed alpha
Helix 16	AB7	B	197	227	Right-handed alpha
Helix 17	AB8	B	298	315	Right-handed alpha
Helix 18	AB9	B	387	392	Right-handed 310
Helix 19	AC1	B	401	417	Right-handed alpha
Helix 20	AC2	B	441	457	Right-handed alpha
Helix 21	AC3	B	486	493	Right-handed alpha
Helix 22	AC4	B	519	545	Right-handed alpha
Helix 23	AC5	C	67	70	Right-handed 310
Helix 24	AC6	C	87	100	Right-handed alpha
Helix 25	AC7	C	125	140	Right-handed alpha
Helix 26	AC8	C	166	172	Right-handed alpha
Helix 27	AC9	C	197	227	Right-handed alpha
Helix 28	AD1	C	298	317	Right-handed alpha
Helix 29	AD2	C	387	392	Right-handed 310
Helix 30	AD3	C	401	417	Right-handed alpha
Helix 31	AD4	C	441	457	Right-handed alpha
Helix 32	AD5	C	486	493	Right-handed alpha
Helix 33	AD6	C	519	545	Right-handed alpha
Helix 34	AD7	D	67	70	Right-handed 310
Helix 35	AD8	D	87	100	Right-handed alpha
Helix 36	AD9	D	125	140	Right-handed alpha
Helix 37	AE1	D	166	172	Right-handed alpha
Helix 38	AE2	D	197	227	Right-handed alpha
Helix 39	AE3	D	298	317	Right-handed alpha
Helix 40	AE4	D	387	392	Right-handed 310
Helix 41	AE5	D	401	417	Right-handed alpha
Helix 42	AE6	D	441	457	Right-handed alpha
Helix 43	AE7	D	486	493	Right-handed alpha
Helix 44	AE8	D	519	545	Right-handed alpha
Helix 45	AE9	E	67	70	Right-handed 310
Helix 46	AF1	E	87	100	Right-handed alpha
Helix 47	AF2	E	125	140	Right-handed alpha
Helix 48	AF3	E	166	172	Right-handed alpha
Helix 49	AF4	E	197	227	Right-handed alpha
Helix 50	AF5	E	298	317	Right-handed alpha
Helix 51	AF6	E	387	392	Right-handed 310
Helix 52	AF7	E	401	417	Right-handed alpha
Helix 53	AF8	E	441	457	Right-handed alpha
Helix 54	AF9	E	486	493	Right-handed alpha
Helix 55	AG1	E	519	545	Right-handed alpha
Helix 56	AG2	F	67	70	Right-handed 310
Helix 57	AG3	F	87	100	Right-handed alpha
Helix 58	AG4	F	125	140	Right-handed alpha
Helix 59	AG5	F	166	172	Right-handed alpha
Helix 60	AG6	F	197	227	Right-handed alpha
Helix 61	AG7	F	298	315	Right-handed alpha
Helix 62	AG8	F	387	392	Right-handed 310
Helix 63	AG9	F	401	417	Right-handed alpha
Helix 64	AH1	F	441	457	Right-handed alpha
Helix 65	AH2	F	486	493	Right-handed alpha
Helix 66	AH3	F	519	545	Right-handed alpha

There are 18 sheets in PDB entry 5YJJ. 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,

There are 6 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	6	12	first strand
Strand 2	A	15	21	anti-parallel
Strand 3	A	30	36	anti-parallel
Strand 4	A	39	47	anti-parallel
Strand 5	A	111	119	anti-parallel
Strand 6	A	59	65	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	160	163	first strand
Strand 2	A	150	157	anti-parallel
Strand 3	A	175	181	anti-parallel
Strand 4	A	186	196	anti-parallel
Strand 5	C	505	513	anti-parallel
Strand 6	C	495	502	anti-parallel
Strand 7	C	466	474	anti-parallel
Strand 8	C	479	483	anti-parallel

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There are 5 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	331	335	first strand
Strand 2	A	343	349	anti-parallel
Strand 3	A	352	361	anti-parallel
Strand 4	A	428	437	anti-parallel
Strand 5	A	380	385	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	A	478	483	first strand
Strand 2	A	466	475	anti-parallel
Strand 3	A	495	502	anti-parallel
Strand 4	A	505	513	anti-parallel
Strand 5	B	186	196	anti-parallel
Strand 6	B	175	181	anti-parallel
Strand 7	B	150	157	anti-parallel
Strand 8	B	160	163	anti-parallel

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There are 6 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	6	12	first strand
Strand 2	B	15	21	anti-parallel
Strand 3	B	30	36	anti-parallel
Strand 4	B	39	47	anti-parallel
Strand 5	B	111	119	anti-parallel
Strand 6	B	59	65	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	B	331	335	first strand
Strand 2	B	343	349	anti-parallel
Strand 3	B	352	361	anti-parallel
Strand 4	B	428	437	anti-parallel
Strand 5	B	380	385	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	B	479	483	first strand
Strand 2	B	466	474	anti-parallel
Strand 3	B	495	502	anti-parallel
Strand 4	B	505	513	anti-parallel
Strand 5	C	186	196	anti-parallel
Strand 6	C	175	181	anti-parallel
Strand 7	C	150	157	anti-parallel
Strand 8	C	160	163	anti-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	C	6	12	first strand
Strand 2	C	15	21	anti-parallel
Strand 3	C	30	36	anti-parallel
Strand 4	C	39	47	anti-parallel
Strand 5	C	111	119	anti-parallel
Strand 6	C	59	65	parallel

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There are 5 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	331	335	first strand
Strand 2	C	343	349	anti-parallel
Strand 3	C	352	361	anti-parallel
Strand 4	C	428	437	anti-parallel
Strand 5	C	380	385	parallel

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There are 6 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	6	12	first strand
Strand 2	D	15	21	anti-parallel
Strand 3	D	30	36	anti-parallel
Strand 4	D	39	47	anti-parallel
Strand 5	D	111	119	anti-parallel
Strand 6	D	59	65	parallel

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There are 8 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	160	163	first strand
Strand 2	D	150	157	anti-parallel
Strand 3	D	175	181	anti-parallel
Strand 4	D	186	196	anti-parallel
Strand 5	E	506	513	anti-parallel
Strand 6	E	495	501	anti-parallel
Strand 7	E	466	474	anti-parallel
Strand 8	E	479	483	anti-parallel

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There are 5 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	331	335	first strand
Strand 2	D	343	349	anti-parallel
Strand 3	D	352	361	anti-parallel
Strand 4	D	428	437	anti-parallel
Strand 5	D	380	385	parallel

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There are 8 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	479	483	first strand
Strand 2	D	466	474	anti-parallel
Strand 3	D	495	502	anti-parallel
Strand 4	D	505	513	anti-parallel
Strand 5	F	186	196	anti-parallel
Strand 6	F	175	181	anti-parallel
Strand 7	F	150	157	anti-parallel
Strand 8	F	160	163	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	6	12	first strand
Strand 2	E	15	21	anti-parallel
Strand 3	E	30	36	anti-parallel
Strand 4	E	39	47	anti-parallel
Strand 5	E	111	119	anti-parallel
Strand 6	E	59	65	parallel

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There are 8 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	160	163	first strand
Strand 2	E	150	157	anti-parallel
Strand 3	E	175	181	anti-parallel
Strand 4	E	186	196	anti-parallel
Strand 5	F	505	513	anti-parallel
Strand 6	F	495	502	anti-parallel
Strand 7	F	466	475	anti-parallel
Strand 8	F	478	483	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	331	335	first strand
Strand 2	E	343	349	anti-parallel
Strand 3	E	352	361	anti-parallel
Strand 4	E	428	437	anti-parallel
Strand 5	E	380	385	parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	6	12	first strand
Strand 2	F	15	21	anti-parallel
Strand 3	F	30	36	anti-parallel
Strand 4	F	39	47	anti-parallel
Strand 5	F	111	119	anti-parallel
Strand 6	F	59	65	parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	331	335	first strand
Strand 2	F	343	349	anti-parallel
Strand 3	F	352	361	anti-parallel
Strand 4	F	428	437	anti-parallel
Strand 5	F	380	385	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: 5YJJ

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