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

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 9DUL entry

There are 29 chains in PDB entry 9DUL (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	A 2	G 515
A	G 517	C 526
A	C 528	C 966
A	A 968	G 1401
A	C 1403	U 1406
A	A 1408	G 1497
A	A 1499	G 1517
A	C 1520	A 1534
B	VAL 4	GLN 227
C	GLY 2	ILE 207
D	ALA 2	LYS 206
E	GLU 10	LEU 165
F	MET 1	VAL 103
G	PRO 2	TYR 154
H	SER 2	ALA 130
I	ASN 4	ARG 130
J	ARG 5	LEU 102
K	ARG 13	VAL 129
L	ALA 2	LYS 88
L	LEU 90	ALA 124
M	ALA 2	ILE 116
N	ALA 2	TRP 101
O	SER 2	ARG 89
P	MET 1	ALA 81
Q	LYS 4	ALA 82
R	LYS 9	HIS 74
S	PRO 2	ALA 85
T	ALA 2	ALA 87
U	PRO 2	TYR 71

There are 97 helices in PDB entry 9DUL. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	5	13	Right-handed alpha
Helix 2	AA2	B	21	23	Right-handed 310
Helix 3	AA3	B	24	28	Right-handed 310
Helix 4	AA4	B	42	63	Right-handed alpha
Helix 5	AA5	B	76	86	Right-handed alpha
Helix 6	AA6	B	103	122	Right-handed alpha
Helix 7	AA7	B	132	149	Right-handed alpha
Helix 8	AA8	B	169	180	Right-handed alpha
Helix 9	AA9	B	206	227	Right-handed alpha
Helix 10	AB1	C	6	11	Right-handed alpha
Helix 11	AB2	C	25	47	Right-handed alpha
Helix 12	AB3	C	48	50	Right-handed 310
Helix 13	AB4	C	72	78	Right-handed alpha
Helix 14	AB5	C	81	96	Right-handed alpha
Helix 15	AB6	C	108	111	Right-handed 310
Helix 16	AB7	C	112	126	Right-handed alpha
Helix 17	AB8	C	129	144	Right-handed alpha
Helix 18	AB9	C	156	160	Right-handed 310
Helix 19	AC1	D	8	16	Right-handed alpha
Helix 20	AC2	D	27	31	Right-handed 310
Helix 21	AC3	D	49	66	Right-handed alpha
Helix 22	AC4	D	68	82	Right-handed alpha
Helix 23	AC5	D	85	97	Right-handed alpha
Helix 24	AC6	D	97	105	Right-handed alpha
Helix 25	AC7	D	110	120	Right-handed alpha
Helix 26	AC8	D	147	152	Right-handed 310
Helix 27	AC9	D	153	163	Right-handed alpha
Helix 28	AD1	D	187	191	Right-handed 310
Helix 29	AD2	D	197	205	Right-handed alpha
Helix 30	AD3	E	55	69	Right-handed alpha
Helix 31	AD4	E	108	119	Right-handed alpha
Helix 32	AD5	E	132	146	Right-handed alpha
Helix 33	AD6	E	149	158	Right-handed alpha
Helix 34	AD7	E	160	165	Right-handed alpha
Helix 35	AD8	F	12	16	Right-handed 310
Helix 36	AD9	F	17	31	Right-handed alpha
Helix 37	AE1	F	67	81	Right-handed alpha
Helix 38	AE2	G	20	31	Right-handed alpha
Helix 39	AE3	G	35	53	Right-handed alpha
Helix 40	AE4	G	60	68	Right-handed alpha
Helix 41	AE5	G	92	110	Right-handed alpha
Helix 42	AE6	G	115	128	Right-handed alpha
Helix 43	AE7	G	132	147	Right-handed alpha
Helix 44	AE8	G	148	152	Right-handed 310
Helix 45	AE9	H	5	20	Right-handed alpha
Helix 46	AF1	H	30	43	Right-handed alpha
Helix 47	AF2	H	88	92	Right-handed 310
Helix 48	AF3	H	94	99	Right-handed 310
Helix 49	AF4	H	113	120	Right-handed alpha
Helix 50	AF5	I	35	39	Right-handed alpha
Helix 51	AF6	I	41	55	Right-handed alpha
Helix 52	AF7	I	57	61	Right-handed 310
Helix 53	AF8	I	71	91	Right-handed alpha
Helix 54	AF9	I	94	101	Right-handed alpha
Helix 55	AG1	J	14	32	Right-handed alpha
Helix 56	AG2	J	80	89	Right-handed alpha
Helix 57	AG3	K	48	50	Right-handed 310
Helix 58	AG4	K	55	58	Right-handed 310
Helix 59	AG5	K	59	74	Right-handed alpha
Helix 60	AG6	K	75	78	Right-handed 310
Helix 61	AG7	K	93	104	Right-handed alpha
Helix 62	AG8	L	3	10	Right-handed alpha
Helix 63	AG9	L	21	25	Right-handed 310
Helix 64	AH1	L	114	118	Right-handed 310
Helix 65	AH2	M	14	19	Right-handed alpha
Helix 66	AH3	M	20	22	Right-handed 310
Helix 67	AH4	M	27	36	Right-handed alpha
Helix 68	AH5	M	44	48	Right-handed 310
Helix 69	AH6	M	49	62	Right-handed alpha
Helix 70	AH7	M	65	84	Right-handed alpha
Helix 71	AH8	M	85	94	Right-handed alpha
Helix 72	AH9	M	106	111	Right-handed alpha
Helix 73	AI1	N	3	20	Right-handed alpha
Helix 74	AI2	N	20	33	Right-handed alpha
Helix 75	AI3	N	37	51	Right-handed alpha
Helix 76	AI4	N	52	60	Right-handed 310
Helix 77	AI5	N	80	90	Right-handed alpha
Helix 78	AI6	O	4	16	Right-handed alpha
Helix 79	AI7	O	24	46	Right-handed alpha
Helix 80	AI8	O	49	74	Right-handed alpha
Helix 81	AI9	O	74	85	Right-handed alpha
Helix 82	AJ1	P	53	63	Right-handed alpha
Helix 83	AJ2	P	68	78	Right-handed alpha
Helix 84	AJ3	Q	49	52	Right-handed 310
Helix 85	AJ4	R	11	16	Right-handed alpha
Helix 86	AJ5	R	25	31	Right-handed alpha
Helix 87	AJ6	R	41	46	Right-handed alpha
Helix 88	AJ7	R	48	65	Right-handed alpha
Helix 89	AJ8	S	12	25	Right-handed alpha
Helix 90	AJ9	S	41	45	Right-handed 310
Helix 91	AK1	S	70	74	Right-handed 310
Helix 92	AK2	T	4	41	Right-handed alpha
Helix 93	AK3	T	44	64	Right-handed alpha
Helix 94	AK4	T	68	87	Right-handed alpha
Helix 95	AK5	U	11	27	Right-handed alpha
Helix 96	AK6	U	27	35	Right-handed alpha
Helix 97	AK7	U	40	64	Right-handed alpha

There are 21 sheets in PDB entry 9DUL. 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, AC1, AC2, AC3,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	16	19	first strand
Strand 2	B	38	41	anti-parallel
Strand 3	B	31	35	anti-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	B	90	92	first strand
Strand 2	B	67	70	parallel
Strand 3	B	160	164	parallel
Strand 4	B	183	186	parallel
Strand 5	B	198	200	parallel

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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	58	first strand
Strand 2	C	65	70	anti-parallel
Strand 3	C	101	105	parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	164	171	first strand
Strand 2	C	148	155	anti-parallel
Strand 3	C	195	203	anti-parallel
Strand 4	C	182	190	anti-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	D	128	129	first strand
Strand 2	D	123	125	anti-parallel
Strand 3	D	141	145	anti-parallel
Strand 4	D	180	182	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	12	25	first strand
Strand 2	E	28	40	anti-parallel
Strand 3	E	45	53	anti-parallel
Strand 4	E	72	73	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	85	89	first strand
Strand 2	E	92	98	anti-parallel
Strand 3	E	123	129	anti-parallel
Strand 4	E	105	106	parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	35	51	first strand
Strand 2	F	54	66	anti-parallel
Strand 3	F	2	10	anti-parallel
Strand 4	F	84	91	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	73	79	first strand
Strand 2	G	84	90	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	24	28	first strand
Strand 2	H	58	62	anti-parallel
Strand 3	H	48	52	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	74	77	first strand
Strand 2	H	123	130	anti-parallel
Strand 3	H	86	87	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	74	77	first strand
Strand 2	H	123	130	anti-parallel
Strand 3	H	101	106	anti-parallel
Strand 4	H	109	112	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	6	12	first strand
Strand 2	I	15	22	anti-parallel
Strand 3	I	62	68	anti-parallel
Strand 4	I	28	30	parallel
Strand 5	I	33	34	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	35	52	first strand
Strand 2	J	62	77	anti-parallel
Strand 3	J	6	12	anti-parallel
Strand 4	J	97	101	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	35	52	first strand
Strand 2	J	62	77	anti-parallel
Strand 3	N	97	98	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	41	46	first strand
Strand 2	K	30	36	anti-parallel
Strand 3	K	19	25	anti-parallel
Strand 4	K	81	87	parallel
Strand 5	K	106	112	parallel
Strand 6	U	3	5	anti-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	L	29	40	first strand
Strand 2	L	50	57	anti-parallel
Strand 3	L	62	66	anti-parallel
Strand 4	L	95	97	parallel
Strand 5	L	81	84	anti-parallel
Strand 6	L	29	40	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	3	4	first strand
Strand 2	M	7	8	anti-parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	50	52	first strand
Strand 2	P	34	39	anti-parallel
Strand 3	P	14	23	anti-parallel
Strand 4	P	2	11	anti-parallel
Strand 5	P	66	67	parallel

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There are 6 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	10	14	first strand
Strand 2	Q	20	30	anti-parallel
Strand 3	Q	37	47	anti-parallel
Strand 4	Q	71	80	parallel
Strand 5	Q	58	63	anti-parallel
Strand 6	Q	10	14	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	31	33	first strand
Strand 2	S	48	52	parallel
Strand 3	S	57	61	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: 9DUL

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