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

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 5DBN entry

There are 4 chains in PDB entry 5DBN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 2	SER 216
B	ASP 2	GLY 214
C	LYS 2	SER 216
D	ASP 2	PRO 28

There are 60 helices in PDB entry 5DBN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	7	12	Right-handed alpha
Helix 2	AA2	A	13	15	Right-handed 310
Helix 3	AA3	A	32	43	Right-handed alpha
Helix 4	AA4	A	61	67	Right-handed alpha
Helix 5	AA5	A	81	91	Right-handed alpha
Helix 6	AA6	A	99	113	Right-handed alpha
Helix 7	AA7	A	125	129	Right-handed 310
Helix 8	AA8	A	168	172	Right-handed 310
Helix 9	AA9	A	174	181	Right-handed alpha
Helix 10	AB1	A	206	210	Right-handed 310
Helix 11	AB2	B	3	13	Right-handed alpha
Helix 12	AB3	B	26	34	Right-handed 310
Helix 13	AB4	B	80	90	Right-handed alpha
Helix 14	AB5	B	124	132	Right-handed alpha
Helix 15	AB6	B	191	198	Right-handed alpha
Helix 16	AB7	C	7	12	Right-handed alpha
Helix 17	AB8	C	13	15	Right-handed 310
Helix 18	AB9	C	32	43	Right-handed alpha
Helix 19	AC1	C	61	67	Right-handed alpha
Helix 20	AC2	C	81	91	Right-handed alpha
Helix 21	AC3	C	99	113	Right-handed alpha
Helix 22	AC4	C	125	129	Right-handed 310
Helix 23	AC5	C	168	172	Right-handed 310
Helix 24	AC6	C	174	181	Right-handed alpha
Helix 25	AC7	C	206	210	Right-handed 310
Helix 26	AC8	D	3	15	Right-handed alpha
Helix 27	AC9	D	26	34	Right-handed 310
Helix 28	AD1	D	80	90	Right-handed alpha
Helix 29	AD2	D	124	132	Right-handed alpha
Helix 30	AD3	D	191	198	Right-handed alpha
Helix 31	AD4	E	7	12	Right-handed alpha
Helix 32	AD5	E	13	15	Right-handed 310
Helix 33	AD6	E	32	43	Right-handed alpha
Helix 34	AD7	E	61	67	Right-handed alpha
Helix 35	AD8	E	81	91	Right-handed alpha
Helix 36	AD9	E	99	113	Right-handed alpha
Helix 37	AE1	E	125	129	Right-handed 310
Helix 38	AE2	E	168	172	Right-handed 310
Helix 39	AE3	E	174	181	Right-handed alpha
Helix 40	AE4	E	206	210	Right-handed 310
Helix 41	AE5	F	2	15	Right-handed alpha
Helix 42	AE6	F	26	34	Right-handed 310
Helix 43	AE7	F	80	90	Right-handed alpha
Helix 44	AE8	F	124	132	Right-handed alpha
Helix 45	AE9	F	191	198	Right-handed alpha
Helix 46	AF1	G	8	12	Right-handed alpha
Helix 47	AF2	G	13	15	Right-handed 310
Helix 48	AF3	G	32	43	Right-handed alpha
Helix 49	AF4	G	61	67	Right-handed alpha
Helix 50	AF5	G	81	91	Right-handed alpha
Helix 51	AF6	G	99	113	Right-handed alpha
Helix 52	AF7	G	125	129	Right-handed 310
Helix 53	AF8	G	168	172	Right-handed 310
Helix 54	AF9	G	174	181	Right-handed alpha
Helix 55	AG1	G	206	210	Right-handed 310
Helix 56	AG2	H	2	13	Right-handed alpha
Helix 57	AG3	H	27	34	Right-handed 310
Helix 58	AG4	H	80	90	Right-handed alpha
Helix 59	AG5	H	124	132	Right-handed alpha
Helix 60	AG6	H	191	198	Right-handed alpha

There are 16 sheets in PDB entry 5DBN. 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,

There are 8 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	6	first strand
Strand 2	A	212	214	parallel
Strand 3	A	182	192	parallel
Strand 4	A	149	159	parallel
Strand 5	A	20	23	parallel
Strand 6	A	47	50	parallel
Strand 7	A	70	75	parallel
Strand 8	A	94	97	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	5	6	first strand
Strand 2	A	212	214	parallel
Strand 3	A	182	192	parallel
Strand 4	A	149	159	parallel
Strand 5	A	165	166	anti-parallel

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There are 6 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	132	136	first strand
Strand 2	A	139	144	anti-parallel
Strand 3	A	116	119	anti-parallel
Strand 4	C	116	119	anti-parallel
Strand 5	C	139	144	anti-parallel
Strand 6	C	133	136	anti-parallel

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There are 10 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	71	78	first strand
Strand 2	B	49	53	anti-parallel
Strand 3	B	42	45	anti-parallel
Strand 4	B	20	23	parallel
Strand 5	B	95	98	parallel
Strand 6	B	135	138	parallel
Strand 7	B	166	168	parallel
Strand 8	B	172	177	anti-parallel
Strand 9	B	180	186	anti-parallel
Strand 10	B	204	205	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	B	109	110	first strand
Strand 2	B	102	104	anti-parallel
Strand 3	B	150	151	parallel

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There are 8 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	5	6	first strand
Strand 2	C	212	214	parallel
Strand 3	C	182	192	parallel
Strand 4	C	149	159	parallel
Strand 5	C	20	23	parallel
Strand 6	C	47	50	parallel
Strand 7	C	70	75	parallel
Strand 8	C	94	97	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	C	5	6	first strand
Strand 2	C	212	214	parallel
Strand 3	C	182	192	parallel
Strand 4	C	149	159	parallel
Strand 5	C	165	166	anti-parallel

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There are 10 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	71	78	first strand
Strand 2	D	49	53	anti-parallel
Strand 3	D	42	45	anti-parallel
Strand 4	D	20	23	parallel
Strand 5	D	95	98	parallel
Strand 6	D	135	138	parallel
Strand 7	D	166	168	parallel
Strand 8	D	172	177	anti-parallel
Strand 9	D	180	186	anti-parallel
Strand 10	D	204	205	parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	109	110	first strand
Strand 2	D	102	104	anti-parallel
Strand 3	D	150	151	parallel

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There are 8 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	5	6	first strand
Strand 2	E	212	214	parallel
Strand 3	E	182	192	parallel
Strand 4	E	149	159	parallel
Strand 5	E	20	23	parallel
Strand 6	E	47	50	parallel
Strand 7	E	70	75	parallel
Strand 8	E	94	97	parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	132	136	first strand
Strand 2	E	139	144	anti-parallel
Strand 3	E	116	119	anti-parallel
Strand 4	G	116	119	anti-parallel
Strand 5	G	139	144	anti-parallel
Strand 6	G	133	136	anti-parallel

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There are 10 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	71	78	first strand
Strand 2	F	49	53	anti-parallel
Strand 3	F	42	45	anti-parallel
Strand 4	F	20	23	parallel
Strand 5	F	95	98	parallel
Strand 6	F	134	138	parallel
Strand 7	F	166	168	parallel
Strand 8	F	172	177	anti-parallel
Strand 9	F	180	186	anti-parallel
Strand 10	F	204	205	parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	109	110	first strand
Strand 2	F	102	104	anti-parallel
Strand 3	F	150	151	parallel

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There are 8 strands in AB5 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	212	215	parallel
Strand 3	G	182	192	parallel
Strand 4	G	149	159	parallel
Strand 5	G	20	23	parallel
Strand 6	G	47	50	parallel
Strand 7	G	70	75	parallel
Strand 8	G	94	97	parallel

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There are 10 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	71	78	first strand
Strand 2	H	49	53	anti-parallel
Strand 3	H	42	45	anti-parallel
Strand 4	H	20	23	parallel
Strand 5	H	95	98	parallel
Strand 6	H	135	138	parallel
Strand 7	H	166	168	parallel
Strand 8	H	172	177	anti-parallel
Strand 9	H	180	186	anti-parallel
Strand 10	H	204	205	parallel

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There are 3 strands in AB7 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	102	104	anti-parallel
Strand 3	H	150	151	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: 5DBN

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