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

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 2CDE entry

There are 6 chains in PDB entry 2CDE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 2	ASN 193
B	GLU 2	ASP 245
C	ASN 2	ASN 193
D	GLU 2	ASP 245
E	ASN 2	ASN 193
F	GLU 2	ASP 245

There are 12 helices in PDB entry 2CDE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	81	85	Right-handed 310
Helix 2	2	A	167	170	Right-handed 310
Helix 3	3	B	132	140	Right-handed alpha
Helix 4	4	B	199	204	Right-handed alpha
Helix 5	5	C	167	170	Right-handed 310
Helix 6	6	D	132	140	Right-handed alpha
Helix 7	7	D	199	204	Right-handed alpha
Helix 8	8	E	167	170	Right-handed 310
Helix 9	9	F	83	87	Right-handed 310
Helix 10	10	F	117	121	Right-handed 310
Helix 11	11	F	132	140	Right-handed alpha
Helix 12	12	F	199	204	Right-handed alpha

There are 25 sheets in PDB entry 2CDE. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, BA, BB, BC, BD, CA, CB, CC, CD, CE, A, DB, C, DD, EA, EB, FA, FB, FC, FD,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	4	7	first strand
Strand 2	A	20	25	anti-parallel
Strand 3	A	72	77	anti-parallel
Strand 4	A	62	64	anti-parallel
Strand 5	A	57	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	10	14	first strand
Strand 2	A	108	113	parallel
Strand 3	A	87	93	anti-parallel
Strand 4	A	32	38	anti-parallel
Strand 5	A	46	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	10	14	first strand
Strand 2	A	108	113	parallel
Strand 3	A	87	93	anti-parallel
Strand 4	A	102	104	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	157	158	first strand
Strand 2	A	175	179	anti-parallel
Strand 3	A	135	140	anti-parallel
Strand 4	A	122	128	anti-parallel
Strand 5	B	128	130	anti-parallel
Strand 6	B	141	151	anti-parallel
Strand 7	B	189	198	anti-parallel
Strand 8	B	171	173	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	157	158	first strand
Strand 2	A	175	179	anti-parallel
Strand 3	A	135	140	anti-parallel
Strand 4	A	122	128	anti-parallel
Strand 5	B	128	130	anti-parallel
Strand 6	B	141	151	anti-parallel
Strand 7	B	189	198	anti-parallel
Strand 8	B	178	179	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	164	166	first strand
Strand 2	A	171	173	anti-parallel

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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	5	8	first strand
Strand 2	B	23	26	anti-parallel

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There are 6 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	11	15	first strand
Strand 2	B	110	115	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	32	38	anti-parallel
Strand 5	B	45	50	anti-parallel
Strand 6	B	57	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	66	67	first strand
Strand 2	B	77	78	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	165	167	first strand
Strand 2	B	156	162	anti-parallel
Strand 3	B	208	215	anti-parallel
Strand 4	B	234	241	anti-parallel

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There are 4 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	5	7	first strand
Strand 2	C	19	24	anti-parallel
Strand 3	C	72	77	anti-parallel
Strand 4	C	62	66	anti-parallel

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There are 8 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	46	50	first strand
Strand 2	C	32	38	anti-parallel
Strand 3	C	87	93	anti-parallel
Strand 4	C	108	113	anti-parallel
Strand 5	C	10	14	parallel
Strand 6	E	10	14	anti-parallel
Strand 7	E	108	113	parallel
Strand 8	E	87	93	anti-parallel

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There are 4 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	46	50	first strand
Strand 2	C	32	38	anti-parallel
Strand 3	C	87	93	anti-parallel
Strand 4	C	102	104	anti-parallel

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There are 11 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	157	158	first strand
Strand 2	C	175	179	anti-parallel
Strand 3	C	135	140	anti-parallel
Strand 4	C	122	128	anti-parallel
Strand 5	D	128	130	anti-parallel
Strand 6	D	141	151	anti-parallel
Strand 7	D	189	198	anti-parallel
Strand 8	D	171	173	anti-parallel
Strand 9	D	189	198	anti-parallel
Strand 10	D	178	179	anti-parallel
Strand 11	D	189	198	anti-parallel

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There are 2 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	164	166	first strand
Strand 2	C	171	173	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	5	6	first strand
Strand 2	D	25	26	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	15	first strand
Strand 2	D	110	115	parallel
Strand 3	D	88	95	anti-parallel
Strand 4	D	32	38	anti-parallel
Strand 5	D	48	50	anti-parallel
Strand 6	D	57	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	20	22	first strand
Strand 2	D	77	79	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	165	167	first strand
Strand 2	D	156	162	anti-parallel
Strand 3	D	208	215	anti-parallel
Strand 4	D	234	241	anti-parallel

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There are 5 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	4	7	first strand
Strand 2	E	19	25	anti-parallel
Strand 3	E	72	77	anti-parallel
Strand 4	E	62	66	anti-parallel
Strand 5	E	55	56	anti-parallel

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There are 8 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	157	158	first strand
Strand 2	E	171	179	anti-parallel
Strand 3	E	162	166	anti-parallel
Strand 4	E	171	179	anti-parallel
Strand 5	F	171	173	first strand
Strand 6	F	189	198	anti-parallel
Strand 7	F	178	179	anti-parallel
Strand 8	F	189	198	anti-parallel

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There are 2 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	5	7	first strand
Strand 2	F	24	26	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	11	15	first strand
Strand 2	F	110	115	parallel
Strand 3	F	88	95	anti-parallel
Strand 4	F	32	38	anti-parallel
Strand 5	F	45	50	anti-parallel
Strand 6	F	57	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	20	22	first strand
Strand 2	F	77	79	anti-parallel
Strand 3	F	66	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	165	167	first strand
Strand 2	F	156	162	anti-parallel
Strand 3	F	208	215	anti-parallel
Strand 4	F	234	241	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: 2CDE

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