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

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 9DMB entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 1	LYS 107
C	GLN 1	SER 114
E	LEU 520	LEU 663
B	ASP 1	LYS 107
G	GLN 1	SER 114
I	LEU 520	LEU 663
D	ASP 1	LYS 107
H	GLN 1	SER 114
J	LEU 520	LEU 663
L	GLU 32	VAL 505
F	GLU 32	VAL 505
K	GLU 32	VAL 505

There are 39 helices in PDB entry 9DMB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	84	88	Right-handed 310
Helix 2	AA2	E	529	534	Right-handed alpha
Helix 3	AA3	E	537	543	Right-handed alpha
Helix 4	AA4	E	570	595	Right-handed alpha
Helix 5	AA5	E	611	616	Right-handed alpha
Helix 6	AA6	E	627	635	Right-handed alpha
Helix 7	AA7	E	641	663	Right-handed alpha
Helix 8	AA8	G	84	88	Right-handed 310
Helix 9	AA9	I	529	534	Right-handed alpha
Helix 10	AB1	I	537	543	Right-handed alpha
Helix 11	AB2	I	570	595	Right-handed alpha
Helix 12	AB3	I	611	616	Right-handed alpha
Helix 13	AB4	I	627	635	Right-handed alpha
Helix 14	AB5	I	641	663	Right-handed alpha
Helix 15	AB6	H	84	88	Right-handed 310
Helix 16	AB7	J	529	534	Right-handed alpha
Helix 17	AB8	J	537	543	Right-handed alpha
Helix 18	AB9	J	570	595	Right-handed alpha
Helix 19	AC1	J	611	616	Right-handed alpha
Helix 20	AC2	J	627	635	Right-handed alpha
Helix 21	AC3	J	641	663	Right-handed alpha
Helix 22	AC4	L	57	63	Right-handed alpha
Helix 23	AC5	L	98	116	Right-handed alpha
Helix 24	AC6	L	122	126	Right-handed 310
Helix 25	AC7	L	139	152	Right-handed 310
Helix 26	AC8	L	335	354	Right-handed alpha
Helix 27	AC9	L	474	481	Right-handed alpha
Helix 28	AD1	F	57	63	Right-handed alpha
Helix 29	AD2	F	98	116	Right-handed alpha
Helix 30	AD3	F	122	126	Right-handed 310
Helix 31	AD4	F	139	152	Right-handed 310
Helix 32	AD5	F	335	354	Right-handed alpha
Helix 33	AD6	F	474	481	Right-handed alpha
Helix 34	AD7	K	57	63	Right-handed alpha
Helix 35	AD8	K	98	116	Right-handed alpha
Helix 36	AD9	K	122	126	Right-handed 310
Helix 37	AE1	K	139	152	Right-handed 310
Helix 38	AE2	K	335	354	Right-handed alpha
Helix 39	AE3	K	474	481	Right-handed alpha

There are 48 sheets in PDB entry 9DMB. 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, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3, AE4, AE5, AE6, AE7, AE8, AE9, AF1, AF2, AF3,

There are 4 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	5	7	first strand
Strand 2	A	20	24	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	62	63	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	A	10	13	first strand
Strand 2	A	102	106	parallel
Strand 3	A	85	90	anti-parallel
Strand 4	A	33	38	anti-parallel
Strand 5	A	45	48	anti-parallel

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There are 4 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	5	7	first strand
Strand 2	C	18	23	anti-parallel
Strand 3	C	78	83	anti-parallel
Strand 4	C	69	73	anti-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	C	11	12	first strand
Strand 2	C	111	112	parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	46	50	first strand
Strand 2	C	34	38	anti-parallel
Strand 3	C	91	95	anti-parallel

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There are 2 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	99	100	first strand
Strand 2	C	101	101	anti-parallel

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There are 3 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	603	604	first strand
Strand 2	K	35	39	anti-parallel
Strand 3	K	495	499	anti-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	B	5	7	first strand
Strand 2	B	20	24	anti-parallel
Strand 3	B	70	75	anti-parallel
Strand 4	B	62	63	anti-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	B	10	13	first strand
Strand 2	B	102	106	parallel
Strand 3	B	85	90	anti-parallel
Strand 4	B	33	38	anti-parallel
Strand 5	B	45	48	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	5	7	first strand
Strand 2	G	18	23	anti-parallel
Strand 3	G	78	83	anti-parallel
Strand 4	G	69	73	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	11	12	first strand
Strand 2	G	111	112	parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	46	50	first strand
Strand 2	G	34	38	anti-parallel
Strand 3	G	91	95	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	99	100	first strand
Strand 2	G	101	101	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	603	604	first strand
Strand 2	F	35	39	anti-parallel
Strand 3	F	495	499	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	5	7	first strand
Strand 2	D	20	24	anti-parallel
Strand 3	D	70	75	anti-parallel
Strand 4	D	62	63	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	D	10	13	first strand
Strand 2	D	102	106	parallel
Strand 3	D	85	90	anti-parallel
Strand 4	D	33	38	anti-parallel
Strand 5	D	45	48	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	5	7	first strand
Strand 2	H	18	23	anti-parallel
Strand 3	H	78	83	anti-parallel
Strand 4	H	69	73	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	H	11	12	first strand
Strand 2	H	111	112	parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	46	50	first strand
Strand 2	H	34	38	anti-parallel
Strand 3	H	91	95	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	99	100	first strand
Strand 2	H	101	101	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	J	603	604	first strand
Strand 2	L	35	39	anti-parallel
Strand 3	L	495	499	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	45	46	first strand
Strand 2	L	490	491	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	84	85	first strand
Strand 2	L	242	245	anti-parallel
Strand 3	L	225	228	anti-parallel
Strand 4	L	486	488	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	91	93	first strand
Strand 2	L	237	239	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	132	133	first strand
Strand 2	L	154	162	anti-parallel
Strand 3	L	169	177	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	181	183	first strand
Strand 2	L	191	193	anti-parallel

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There are 6 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	272	273	first strand
Strand 2	L	284	297	anti-parallel
Strand 3	L	444	455	anti-parallel
Strand 4	L	465	470	anti-parallel
Strand 5	L	358	361	parallel
Strand 6	L	394	395	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	272	273	first strand
Strand 2	L	284	297	anti-parallel
Strand 3	L	330	334	anti-parallel
Strand 4	L	413	417	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	304	312	first strand
Strand 2	L	315	320	anti-parallel

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There are 2 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	374	378	first strand
Strand 2	L	381	385	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	45	46	first strand
Strand 2	F	490	491	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	84	85	first strand
Strand 2	F	242	245	anti-parallel
Strand 3	F	225	228	anti-parallel
Strand 4	F	486	488	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	91	93	first strand
Strand 2	F	237	239	anti-parallel

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There are 3 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	132	133	first strand
Strand 2	F	154	162	anti-parallel
Strand 3	F	169	177	anti-parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	181	183	first strand
Strand 2	F	191	193	anti-parallel

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There are 6 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	272	273	first strand
Strand 2	F	284	297	anti-parallel
Strand 3	F	444	455	anti-parallel
Strand 4	F	465	470	anti-parallel
Strand 5	F	358	361	parallel
Strand 6	F	394	395	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	272	273	first strand
Strand 2	F	284	297	anti-parallel
Strand 3	F	330	334	anti-parallel
Strand 4	F	413	417	anti-parallel

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There are 2 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	304	312	first strand
Strand 2	F	315	320	anti-parallel

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There are 2 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	374	378	first strand
Strand 2	F	381	385	anti-parallel

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There are 2 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	45	46	first strand
Strand 2	K	490	491	anti-parallel

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There are 4 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	84	85	first strand
Strand 2	K	242	245	anti-parallel
Strand 3	K	225	228	anti-parallel
Strand 4	K	486	488	anti-parallel

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There are 2 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	91	93	first strand
Strand 2	K	237	239	anti-parallel

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There are 3 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	132	133	first strand
Strand 2	K	154	162	anti-parallel
Strand 3	K	169	177	anti-parallel

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There are 2 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	181	183	first strand
Strand 2	K	191	193	anti-parallel

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There are 6 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	272	273	first strand
Strand 2	K	284	297	anti-parallel
Strand 3	K	444	455	anti-parallel
Strand 4	K	465	470	anti-parallel
Strand 5	K	358	361	parallel
Strand 6	K	394	395	anti-parallel

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There are 4 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	272	273	first strand
Strand 2	K	284	297	anti-parallel
Strand 3	K	330	334	anti-parallel
Strand 4	K	413	417	anti-parallel

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There are 2 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	304	312	first strand
Strand 2	K	315	320	anti-parallel

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There are 2 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	374	378	first strand
Strand 2	K	381	385	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: 9DMB

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