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

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 2YKR entry

There are 22 chains in PDB entry 2YKR (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	A 2	A 1534
B	MET 8	SER 225
C	GLY 1	ILE 206
D	ALA 1	LYS 205
E	GLU 9	LYS 158
F	MET 1	SER 100
G	PRO 1	ALA 151
H	SER 1	ALA 129
I	ASN 3	ARG 129
J	ARG 5	LEU 102
K	ARG 12	VAL 128
L	ALA 1	ALA 123
M	ALA 1	PRO 114
N	ALA 1	TRP 100
O	SER 1	ARG 88
P	MET 1	ALA 82
Q	LYS 3	VAL 82
R	GLU 19	HIS 73
S	ARG 2	ARG 80
T	ASN 2	ALA 86
U	ILE 3	LYS 53
W	LEU 35	GLN 338

There are 77 helices in PDB entry 2YKR. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	B	44	59	Right-handed alpha
Helix 2	2	B	102	106	Right-handed 310
Helix 3	3	B	114	118	Right-handed 310
Helix 4	4	B	141	146	Right-handed alpha
Helix 5	5	B	168	177	Right-handed alpha
Helix 6	6	B	209	221	Right-handed alpha
Helix 7	7	C	24	46	Right-handed alpha
Helix 8	8	C	71	77	Right-handed alpha
Helix 9	9	C	80	92	Right-handed alpha
Helix 10	10	C	111	124	Right-handed alpha
Helix 11	11	C	128	142	Right-handed alpha
Helix 12	12	D	6	15	Right-handed alpha
Helix 13	13	D	48	65	Right-handed alpha
Helix 14	14	D	67	81	Right-handed alpha
Helix 15	15	D	84	95	Right-handed alpha
Helix 16	16	D	98	103	Right-handed alpha
Helix 17	17	D	109	119	Right-handed alpha
Helix 18	18	D	151	163	Right-handed alpha
Helix 19	19	D	198	203	Right-handed alpha
Helix 20	20	E	54	68	Right-handed alpha
Helix 21	21	E	112	118	Right-handed alpha
Helix 22	22	E	134	145	Right-handed alpha
Helix 23	23	F	17	32	Right-handed alpha
Helix 24	24	F	69	81	Right-handed alpha
Helix 25	25	G	19	28	Right-handed alpha
Helix 26	26	G	39	54	Right-handed alpha
Helix 27	27	G	57	69	Right-handed alpha
Helix 28	28	G	91	105	Right-handed alpha
Helix 29	29	G	114	128	Right-handed alpha
Helix 30	30	G	131	144	Right-handed alpha
Helix 31	31	H	4	19	Right-handed alpha
Helix 32	32	H	29	41	Right-handed alpha
Helix 33	33	H	111	118	Right-handed alpha
Helix 34	34	I	29	32	Right-handed 310
Helix 35	35	I	70	86	Right-handed alpha
Helix 36	36	I	87	89	Right-handed 310
Helix 37	37	J	14	19	Right-handed alpha
Helix 38	38	J	19	32	Right-handed alpha
Helix 39	39	J	80	88	Right-handed alpha
Helix 40	40	K	58	71	Right-handed alpha
Helix 41	41	K	73	77	Right-handed 310
Helix 42	42	K	93	101	Right-handed alpha
Helix 43	43	L	2	9	Right-handed alpha
Helix 44	44	M	26	34	Right-handed alpha
Helix 45	45	M	48	51	Right-handed 310
Helix 46	46	M	52	59	Right-handed alpha
Helix 47	47	M	64	83	Right-handed alpha
Helix 48	48	M	85	91	Right-handed alpha
Helix 49	49	N	2	8	Right-handed alpha
Helix 50	50	N	9	13	Right-handed 310
Helix 51	51	N	14	19	Right-handed alpha
Helix 52	52	N	79	88	Right-handed alpha
Helix 53	53	O	3	12	Right-handed alpha
Helix 54	54	O	23	44	Right-handed alpha
Helix 55	55	O	48	73	Right-handed alpha
Helix 56	56	O	73	84	Right-handed alpha
Helix 57	57	P	53	63	Right-handed alpha
Helix 58	58	P	70	76	Right-handed alpha
Helix 59	59	R	27	31	Right-handed 310
Helix 60	60	R	47	65	Right-handed alpha
Helix 61	61	S	11	24	Right-handed alpha
Helix 62	62	S	69	74	Right-handed alpha
Helix 63	63	T	7	14	Right-handed alpha
Helix 64	64	T	17	40	Right-handed alpha
Helix 65	65	T	42	59	Right-handed alpha
Helix 66	66	T	59	64	Right-handed alpha
Helix 67	67	T	67	82	Right-handed alpha
Helix 68	68	U	24	29	Right-handed alpha
Helix 69	69	W	137	152	Right-handed alpha
Helix 70	70	W	166	184	Right-handed alpha
Helix 71	71	W	197	206	Right-handed alpha
Helix 72	72	W	219	229	Right-handed alpha
Helix 73	73	W	267	273	Right-handed alpha
Helix 74	74	W	279	286	Right-handed alpha
Helix 75	75	W	288	297	Right-handed alpha
Helix 76	76	W	310	319	Right-handed alpha
Helix 77	77	W	322	337	Right-handed alpha

There are 29 sheets in PDB entry 2YKR. Click on sheet of interest to get list of strands forming it: BA, BB, CA, CB, CC, CD, CE, A, EA, EB, FA, HA, HB, IA, IB, JA, JB, JC, KA, LA, LB, LC, PA, QA, QB, QC, SA, WA, WB,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	31	32	first strand
Strand 2	B	36	37	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	90	91	first strand
Strand 2	B	68	69	parallel
Strand 3	B	160	162	parallel
Strand 4	B	182	185	parallel
Strand 5	B	195	199	parallel

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There are 3 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	51	57	first strand
Strand 2	C	64	69	anti-parallel
Strand 3	C	99	104	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	165	166	first strand
Strand 2	C	147	152	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	169	170	first strand
Strand 2	C	147	152	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	179	188	first strand
Strand 2	C	195	205	anti-parallel
Strand 3	C	147	152	anti-parallel
Strand 4	C	165	166	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	179	188	first strand
Strand 2	C	195	205	anti-parallel
Strand 3	C	147	152	anti-parallel
Strand 4	C	169	170	anti-parallel

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There are 2 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	140	141	first strand
Strand 2	D	180	181	anti-parallel

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There are 3 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	12	17	first strand
Strand 2	E	34	41	anti-parallel
Strand 3	E	44	49	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	84	86	first strand
Strand 2	E	93	97	anti-parallel
Strand 3	E	122	124	anti-parallel

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There are 3 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	2	9	first strand
Strand 2	F	58	66	anti-parallel
Strand 3	F	36	44	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	23	25	first strand
Strand 2	H	58	62	anti-parallel
Strand 3	H	45	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	109	110	first strand
Strand 2	H	103	104	anti-parallel
Strand 3	H	123	124	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	15	16	first strand
Strand 2	I	66	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	19	21	first strand
Strand 2	I	61	63	anti-parallel

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There are 2 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	7	11	first strand
Strand 2	J	97	101	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	36	40	first strand
Strand 2	J	74	76	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	49	51	first strand
Strand 2	J	63	65	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	42	44	first strand
Strand 2	K	30	35	anti-parallel
Strand 3	K	17	23	anti-parallel
Strand 4	K	80	86	parallel
Strand 5	K	105	111	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	32	35	first strand
Strand 2	L	49	55	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	38	39	first strand
Strand 2	L	49	55	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	62	65	first strand
Strand 2	L	49	55	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	34	35	first strand
Strand 2	P	18	23	anti-parallel
Strand 3	P	2	7	anti-parallel
Strand 4	P	65	66	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	6	8	first strand
Strand 2	Q	56	67	anti-parallel
Strand 3	Q	70	80	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	21	25	first strand
Strand 2	Q	40	44	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	28	29	first strand
Strand 2	Q	36	37	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	31	32	first strand
Strand 2	S	48	51	parallel
Strand 3	S	56	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	61	64	first strand
Strand 2	W	52	56	anti-parallel
Strand 3	W	40	46	anti-parallel
Strand 4	W	78	83	anti-parallel
Strand 5	W	95	97	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	187	189	first strand
Strand 2	W	154	159	parallel
Strand 3	W	125	130	parallel
Strand 4	W	209	213	parallel
Strand 5	W	263	266	parallel
Strand 6	W	254	257	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: 2YKR

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