Analysis of interatomic Contacts of Structural Units in PDB entry:
9NY4

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 9NY4 entry

There are 12 chains in PDB entry 9NY4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 37	ARG 134
B	LYS 20	GLY 102
C	LYS 9	SER 113
D	ARG 26	LYS 122
E	LYS 37	ALA 135
F	ARG 23	GLY 102
G	THR 10	LYS 118
H	ARG 26	ALA 121
I	A -72	T 72
J	A -72	T 72
K	HIS 211	MET 558
U	MET 1	ARG 74

There are 51 helices in PDB entry 9NY4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	46	54	Right-handed alpha
Helix 2	AA2	A	66	76	Right-handed alpha
Helix 3	AA3	A	87	113	Right-handed alpha
Helix 4	AA4	A	120	131	Right-handed alpha
Helix 5	AA5	B	24	29	Right-handed 310
Helix 6	AA6	B	30	40	Right-handed alpha
Helix 7	AA7	B	49	75	Right-handed alpha
Helix 8	AA8	B	82	92	Right-handed alpha
Helix 9	AA9	C	16	22	Right-handed alpha
Helix 10	AB1	C	26	38	Right-handed alpha
Helix 11	AB2	C	48	73	Right-handed alpha
Helix 12	AB3	C	79	88	Right-handed alpha
Helix 13	AB4	C	92	97	Right-handed alpha
Helix 14	AB5	D	34	46	Right-handed alpha
Helix 15	AB6	D	52	61	Right-handed alpha
Helix 16	AB7	D	61	80	Right-handed alpha
Helix 17	AB8	D	87	99	Right-handed alpha
Helix 18	AB9	D	103	120	Right-handed alpha
Helix 19	AC1	E	44	50	Right-handed alpha
Helix 20	AC2	E	52	57	Right-handed alpha
Helix 21	AC3	E	65	76	Right-handed alpha
Helix 22	AC4	E	87	113	Right-handed alpha
Helix 23	AC5	E	122	129	Right-handed alpha
Helix 24	AC6	F	24	29	Right-handed 310
Helix 25	AC7	F	30	40	Right-handed alpha
Helix 26	AC8	F	49	75	Right-handed alpha
Helix 27	AC9	F	82	88	Right-handed alpha
Helix 28	AD1	F	88	93	Right-handed alpha
Helix 29	AD2	G	16	22	Right-handed alpha
Helix 30	AD3	G	26	38	Right-handed alpha
Helix 31	AD4	G	48	73	Right-handed alpha
Helix 32	AD5	G	80	88	Right-handed alpha
Helix 33	AD6	G	92	97	Right-handed alpha
Helix 34	AD7	G	112	116	Right-handed 310
Helix 35	AD8	H	34	46	Right-handed alpha
Helix 36	AD9	H	52	80	Right-handed alpha
Helix 37	AE1	H	87	99	Right-handed alpha
Helix 38	AE2	H	102	119	Right-handed alpha
Helix 39	AE3	K	220	232	Right-handed alpha
Helix 40	AE4	K	233	235	Right-handed 310
Helix 41	AE5	K	236	243	Right-handed alpha
Helix 42	AE6	K	244	248	Right-handed 310
Helix 43	AE7	K	257	270	Right-handed alpha
Helix 44	AE8	K	280	291	Right-handed alpha
Helix 45	AE9	K	292	295	Right-handed 310
Helix 46	AF1	K	301	317	Right-handed alpha
Helix 47	AF2	K	356	364	Right-handed alpha
Helix 48	AF3	K	415	425	Right-handed alpha
Helix 49	AF4	K	430	434	Right-handed 310
Helix 50	AF5	K	541	547	Right-handed alpha
Helix 51	AF6	U	22	34	Right-handed alpha

There are 7 sheets in PDB entry 9NY4. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

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	C	42	43	first strand
Strand 2	D	85	86	parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	77	78	first strand
Strand 2	D	50	51	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	E	83	84	first strand
Strand 2	F	80	81	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	G	77	78	first strand
Strand 2	H	50	51	parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	390	397	first strand
Strand 2	K	376	384	anti-parallel
Strand 3	K	446	452	anti-parallel
Strand 4	K	427	429	anti-parallel

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There are 7 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	399	402	first strand
Strand 2	K	458	463	parallel
Strand 3	K	552	557	anti-parallel
Strand 4	K	502	508	anti-parallel
Strand 5	K	521	525	anti-parallel
Strand 6	K	528	533	anti-parallel
Strand 7	K	536	540	anti-parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	12	16	first strand
Strand 2	U	2	6	anti-parallel
Strand 3	U	66	70	parallel
Strand 4	U	42	45	anti-parallel
Strand 5	U	48	49	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: 9NY4

Analysis of interatomic Contacts of Structural Units in PDB entry:
9NY4