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

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 5CFD entry

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

Chain ID	Initial residue	Terminal residue
A	GLY 1	PRO 254
B	SER 1	GLN 232
C	SER 11	VAL 268
D	GLY 15	ASN 38

There are 18 helices in PDB entry 5CFD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	4	8	Right-handed 310
Helix 2	AA2	A	32	38	Right-handed alpha
Helix 3	AA3	A	107	113	Right-handed alpha
Helix 4	AA4	A	159	163	Right-handed 310
Helix 5	AA5	B	44	49	Right-handed alpha
Helix 6	AA6	B	87	91	Right-handed 310
Helix 7	AA7	B	93	100	Right-handed alpha
Helix 8	AA8	B	139	144	Right-handed alpha
Helix 9	AA9	C	36	38	Right-handed 310
Helix 10	AB1	C	85	89	Right-handed 310
Helix 11	AB2	C	90	92	Right-handed 310
Helix 12	AB3	C	93	101	Right-handed alpha
Helix 13	AB4	C	146	151	Right-handed alpha
Helix 14	AB5	C	160	164	Right-handed 310
Helix 15	AB6	C	173	178	Right-handed 310
Helix 16	AB7	C	186	193	Right-handed 310
Helix 17	AB8	C	220	224	Right-handed 310
Helix 18	AB9	D	26	31	Right-handed alpha

There are 15 sheets in PDB entry 5CFD. 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,

There are 5 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	2	3	first strand
Strand 2	B	158	163	anti-parallel
Strand 3	B	109	115	anti-parallel
Strand 4	B	206	214	anti-parallel
Strand 5	B	52	53	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	2	3	first strand
Strand 2	B	158	163	anti-parallel
Strand 3	B	109	115	anti-parallel
Strand 4	B	206	214	anti-parallel
Strand 5	B	66	69	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	A	41	48	first strand
Strand 2	A	229	245	anti-parallel
Strand 3	A	116	129	anti-parallel
Strand 4	A	195	196	anti-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	A	179	186	first strand
Strand 2	A	116	129	anti-parallel
Strand 3	A	229	245	anti-parallel
Strand 4	B	40	41	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	60	61	first strand
Strand 2	A	64	65	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	A	67	69	first strand
Strand 2	A	222	226	anti-parallel
Strand 3	A	136	142	anti-parallel
Strand 4	A	168	172	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	75	76	first strand
Strand 2	A	85	86	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	89	90	first strand
Strand 2	C	180	181	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	B	30	31	first strand
Strand 2	D	33	34	parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	56	57	first strand
Strand 2	B	63	64	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	79	82	first strand
Strand 2	B	187	197	anti-parallel
Strand 3	B	122	130	anti-parallel
Strand 4	B	147	152	anti-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	B	172	173	first strand
Strand 2	B	104	106	anti-parallel
Strand 3	B	219	221	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	C	15	19	first strand
Strand 2	C	22	26	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	32	34	first strand
Strand 2	C	205	210	parallel
Strand 3	C	103	115	anti-parallel
Strand 4	C	247	263	anti-parallel
Strand 5	C	63	70	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	C	79	84	first strand
Strand 2	C	227	238	anti-parallel
Strand 3	C	123	132	anti-parallel
Strand 4	C	195	199	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: 5CFD

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