Analysis of interatomic Contacts of Structural Units in PDB entry:
8KDK

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 8KDK entry

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

Chain ID	Initial residue	Terminal residue
D	ALA 6	GLY 259
D	GLN 261	ARG 416
A	PRO 27	GLY 259
A	GLN 261	HIS 419
B	ALA 6	GLY 259
B	GLN 261	HIS 422
C	PRO 27	GLY 259
C	GLN 261	HIS 422

There are 66 helices in PDB entry 8KDK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	D	9	18	Right-handed alpha
Helix 2	AA2	D	26	34	Right-handed alpha
Helix 3	AA3	D	54	64	Right-handed alpha
Helix 4	AA4	D	79	94	Right-handed alpha
Helix 5	AA5	D	110	126	Right-handed alpha
Helix 6	AA6	D	141	150	Right-handed alpha
Helix 7	AA7	D	167	181	Right-handed alpha
Helix 8	AA8	D	202	217	Right-handed alpha
Helix 9	AA9	D	226	230	Right-handed 310
Helix 10	AB1	D	238	246	Right-handed alpha
Helix 11	AB2	D	264	268	Right-handed 310
Helix 12	AB3	D	275	286	Right-handed alpha
Helix 13	AB4	D	295	307	Right-handed alpha
Helix 14	AB5	D	308	337	Right-handed alpha
Helix 15	AB6	D	359	372	Right-handed alpha
Helix 16	AB7	D	394	408	Right-handed alpha
Helix 17	AB8	D	410	414	Right-handed 310
Helix 18	AB9	A	28	34	Right-handed alpha
Helix 19	AC1	A	54	64	Right-handed alpha
Helix 20	AC2	A	79	94	Right-handed alpha
Helix 21	AC3	A	110	126	Right-handed alpha
Helix 22	AC4	A	141	150	Right-handed alpha
Helix 23	AC5	A	167	181	Right-handed alpha
Helix 24	AC6	A	202	217	Right-handed alpha
Helix 25	AC7	A	226	230	Right-handed 310
Helix 26	AC8	A	238	246	Right-handed alpha
Helix 27	AC9	A	264	268	Right-handed 310
Helix 28	AD1	A	275	285	Right-handed alpha
Helix 29	AD2	A	295	307	Right-handed alpha
Helix 30	AD3	A	308	337	Right-handed alpha
Helix 31	AD4	A	359	372	Right-handed alpha
Helix 32	AD5	A	394	408	Right-handed alpha
Helix 33	AD6	A	410	414	Right-handed 310
Helix 34	AD7	B	9	18	Right-handed alpha
Helix 35	AD8	B	26	34	Right-handed alpha
Helix 36	AD9	B	54	64	Right-handed alpha
Helix 37	AE1	B	79	94	Right-handed alpha
Helix 38	AE2	B	110	126	Right-handed alpha
Helix 39	AE3	B	141	150	Right-handed alpha
Helix 40	AE4	B	167	181	Right-handed alpha
Helix 41	AE5	B	202	217	Right-handed alpha
Helix 42	AE6	B	226	230	Right-handed 310
Helix 43	AE7	B	238	247	Right-handed alpha
Helix 44	AE8	B	264	268	Right-handed 310
Helix 45	AE9	B	275	286	Right-handed alpha
Helix 46	AF1	B	295	307	Right-handed alpha
Helix 47	AF2	B	308	337	Right-handed alpha
Helix 48	AF3	B	359	372	Right-handed alpha
Helix 49	AF4	B	394	408	Right-handed alpha
Helix 50	AF5	B	410	414	Right-handed 310
Helix 51	AF6	C	28	34	Right-handed alpha
Helix 52	AF7	C	54	64	Right-handed alpha
Helix 53	AF8	C	79	94	Right-handed alpha
Helix 54	AF9	C	110	126	Right-handed alpha
Helix 55	AG1	C	141	150	Right-handed alpha
Helix 56	AG2	C	167	181	Right-handed alpha
Helix 57	AG3	C	202	217	Right-handed alpha
Helix 58	AG4	C	226	230	Right-handed 310
Helix 59	AG5	C	238	246	Right-handed alpha
Helix 60	AG6	C	264	268	Right-handed 310
Helix 61	AG7	C	275	285	Right-handed alpha
Helix 62	AG8	C	295	307	Right-handed alpha
Helix 63	AG9	C	308	337	Right-handed alpha
Helix 64	AH1	C	359	372	Right-handed alpha
Helix 65	AH2	C	394	408	Right-handed alpha
Helix 66	AH3	C	410	414	Right-handed 310

There are 13 sheets in PDB entry 8KDK. 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,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	42	43	first strand
Strand 2	D	373	374	parallel

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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	103	107	first strand
Strand 2	D	270	274	anti-parallel
Strand 3	D	252	257	anti-parallel
Strand 4	D	219	223	parallel
Strand 5	D	184	190	parallel
Strand 6	D	131	137	parallel
Strand 7	D	152	157	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	D	341	342	first strand
Strand 2	D	349	353	anti-parallel
Strand 3	D	386	390	anti-parallel
Strand 4	D	376	377	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	A	42	43	first strand
Strand 2	A	373	374	parallel

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There are 7 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	103	107	first strand
Strand 2	A	270	274	anti-parallel
Strand 3	A	252	257	anti-parallel
Strand 4	A	219	223	parallel
Strand 5	A	184	190	parallel
Strand 6	A	131	137	parallel
Strand 7	A	152	157	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	341	342	first strand
Strand 2	A	349	353	anti-parallel
Strand 3	A	386	390	anti-parallel
Strand 4	A	376	377	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	417	418	first strand
Strand 2	B	418	419	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	B	42	43	first strand
Strand 2	B	373	374	parallel

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There are 7 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	103	107	first strand
Strand 2	B	270	274	anti-parallel
Strand 3	B	252	257	anti-parallel
Strand 4	B	219	223	parallel
Strand 5	B	184	190	parallel
Strand 6	B	131	137	parallel
Strand 7	B	152	157	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	B	341	342	first strand
Strand 2	B	349	353	anti-parallel
Strand 3	B	386	390	anti-parallel
Strand 4	B	376	377	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	C	42	43	first strand
Strand 2	C	373	374	parallel

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There are 7 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	103	107	first strand
Strand 2	C	270	274	anti-parallel
Strand 3	C	252	257	anti-parallel
Strand 4	C	219	223	parallel
Strand 5	C	184	190	parallel
Strand 6	C	131	137	parallel
Strand 7	C	152	157	parallel

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There are 4 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	341	342	first strand
Strand 2	C	349	353	anti-parallel
Strand 3	C	386	390	anti-parallel
Strand 4	C	376	377	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: 8KDK

Analysis of interatomic Contacts of Structural Units in PDB entry:
8KDK