Analysis of interatomic Contacts of Structural Units in PDB entry:
9KDF

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 9KDF entry

There are 3 chains in PDB entry 9KDF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
R	PRO 93	LEU 1347
F	GLY 4	GLU 110
A	GLY 1	TYR 15

There are 39 helices in PDB entry 9KDF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	R	93	129	Right-handed alpha
Helix 2	AA2	R	136	163	Right-handed alpha
Helix 3	AA3	R	170	204	Right-handed alpha
Helix 4	AA4	R	216	238	Right-handed alpha
Helix 5	AA5	R	263	272	Right-handed alpha
Helix 6	AA6	R	272	280	Right-handed alpha
Helix 7	AA7	R	282	303	Right-handed alpha
Helix 8	AA8	R	306	320	Right-handed alpha
Helix 9	AA9	R	328	334	Right-handed alpha
Helix 10	AB1	R	335	341	Right-handed 310
Helix 11	AB2	R	343	352	Right-handed alpha
Helix 12	AB3	R	360	370	Right-handed alpha
Helix 13	AB4	R	376	389	Right-handed alpha
Helix 14	AB5	R	397	410	Right-handed alpha
Helix 15	AB6	R	414	430	Right-handed alpha
Helix 16	AB7	R	439	446	Right-handed alpha
Helix 17	AB8	R	447	455	Right-handed 310
Helix 18	AB9	R	466	483	Right-handed alpha
Helix 19	AC1	R	483	497	Right-handed alpha
Helix 20	AC2	R	504	526	Right-handed alpha
Helix 21	AC3	R	528	537	Right-handed alpha
Helix 22	AC4	R	537	549	Right-handed alpha
Helix 23	AC5	R	1006	1011	Right-handed alpha
Helix 24	AC6	R	1018	1028	Right-handed alpha
Helix 25	AC7	R	1033	1050	Right-handed alpha
Helix 26	AC8	R	1070	1082	Right-handed alpha
Helix 27	AC9	R	1101	1116	Right-handed alpha
Helix 28	AD1	R	1129	1136	Right-handed alpha
Helix 29	AD2	R	1137	1146	Right-handed alpha
Helix 30	AD3	R	1147	1160	Right-handed alpha
Helix 31	AD4	R	1184	1190	Right-handed alpha
Helix 32	AD5	R	1201	1209	Right-handed alpha
Helix 33	AD6	R	1237	1249	Right-handed alpha
Helix 34	AD7	R	1286	1290	Right-handed 310
Helix 35	AD8	R	1319	1323	Right-handed 310
Helix 36	AD9	R	1324	1345	Right-handed alpha
Helix 37	AE1	F	43	46	Right-handed 310
Helix 38	AE2	F	59	68	Right-handed alpha
Helix 39	AE3	F	81	84	Right-handed 310

There are 7 sheets in PDB entry 9KDF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

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	R	240	244	first strand
Strand 2	R	253	257	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	395	396	first strand
Strand 2	R	437	438	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	R	1054	1057	first strand
Strand 2	R	1164	1167	parallel
Strand 3	R	1171	1173	anti-parallel
Strand 4	R	1252	1255	parallel
Strand 5	R	1278	1281	parallel
Strand 6	R	1264	1266	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1120	1122	first strand
Strand 2	R	1089	1091	parallel
Strand 3	R	1061	1064	parallel
Strand 4	R	1295	1301	anti-parallel
Strand 5	R	1304	1310	anti-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	R	1210	1211	first strand
Strand 2	R	1234	1236	parallel
Strand 3	R	1224	1226	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	5	11	first strand
Strand 2	F	74	79	anti-parallel
Strand 3	F	100	110	anti-parallel
Strand 4	F	24	32	anti-parallel
Strand 5	F	38	41	anti-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	F	5	11	first strand
Strand 2	F	74	79	anti-parallel
Strand 3	F	100	110	anti-parallel
Strand 4	F	24	32	anti-parallel
Strand 5	F	49	52	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: 9KDF

Analysis of interatomic Contacts of Structural Units in PDB entry:
9KDF