Analysis of interatomic Contacts of Structural Units in PDB entry:
6KDV

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 6KDV entry

There are 8 chains in PDB entry 6KDV (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	SER 21	GLY 313
A	LEU 13	LEU 279
D	SER 21	ALA 310
C	LEU 13	LEU 279
E	A 7	T 21
F	T 8	C 18
G	A 7	T 21
H	T 6	C 18

There are 34 helices in PDB entry 6KDV. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	66	75	Right-handed alpha
Helix 2	AA2	B	100	112	Right-handed alpha
Helix 3	AA3	B	112	126	Right-handed alpha
Helix 4	AA4	B	140	161	Right-handed alpha
Helix 5	AA5	B	178	202	Right-handed alpha
Helix 6	AA6	B	217	243	Right-handed alpha
Helix 7	AA7	B	246	263	Right-handed alpha
Helix 8	AA8	B	263	275	Right-handed alpha
Helix 9	AA9	A	66	75	Right-handed alpha
Helix 10	AB1	A	84	87	Right-handed 310
Helix 11	AB2	A	100	112	Right-handed alpha
Helix 12	AB3	A	112	126	Right-handed alpha
Helix 13	AB4	A	139	161	Right-handed alpha
Helix 14	AB5	A	178	202	Right-handed alpha
Helix 15	AB6	A	217	243	Right-handed alpha
Helix 16	AB7	A	246	261	Right-handed alpha
Helix 17	AB8	A	263	276	Right-handed alpha
Helix 18	AB9	D	66	75	Right-handed alpha
Helix 19	AC1	D	100	112	Right-handed alpha
Helix 20	AC2	D	112	126	Right-handed alpha
Helix 21	AC3	D	137	161	Right-handed alpha
Helix 22	AC4	D	178	202	Right-handed alpha
Helix 23	AC5	D	217	243	Right-handed alpha
Helix 24	AC6	D	246	263	Right-handed alpha
Helix 25	AC7	D	263	275	Right-handed alpha
Helix 26	AC8	C	66	75	Right-handed alpha
Helix 27	AC9	C	84	87	Right-handed 310
Helix 28	AD1	C	100	112	Right-handed alpha
Helix 29	AD2	C	112	126	Right-handed alpha
Helix 30	AD3	C	139	159	Right-handed alpha
Helix 31	AD4	C	178	202	Right-handed alpha
Helix 32	AD5	C	217	243	Right-handed alpha
Helix 33	AD6	C	246	261	Right-handed alpha
Helix 34	AD7	C	263	276	Right-handed alpha

There are 6 sheets in PDB entry 6KDV. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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	B	23	25	first strand
Strand 2	B	55	58	parallel
Strand 3	B	78	81	parallel
Strand 4	B	89	92	anti-parallel
Strand 5	A	89	95	anti-parallel
Strand 6	A	78	82	anti-parallel
Strand 7	A	53	58	parallel
Strand 8	A	21	25	parallel

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There are 8 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	44	48	first strand
Strand 2	B	36	41	anti-parallel
Strand 3	B	29	33	anti-parallel
Strand 4	B	63	65	parallel
Strand 5	A	62	65	anti-parallel
Strand 6	A	28	32	parallel
Strand 7	A	37	41	anti-parallel
Strand 8	A	44	48	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	299	300	first strand
Strand 2	B	303	304	anti-parallel

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There are 8 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	23	25	first strand
Strand 2	D	55	58	parallel
Strand 3	D	78	81	parallel
Strand 4	D	89	92	anti-parallel
Strand 5	C	89	95	anti-parallel
Strand 6	C	78	82	anti-parallel
Strand 7	C	53	58	parallel
Strand 8	C	21	25	parallel

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There are 8 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	44	48	first strand
Strand 2	D	36	41	anti-parallel
Strand 3	D	29	33	anti-parallel
Strand 4	D	63	65	parallel
Strand 5	C	62	65	anti-parallel
Strand 6	C	28	33	parallel
Strand 7	C	36	41	anti-parallel
Strand 8	C	44	48	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	D	298	300	first strand
Strand 2	D	303	305	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: 6KDV

Analysis of interatomic Contacts of Structural Units in PDB entry:
6KDV