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

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 8KDG entry

There are 4 chains in PDB entry 8KDG (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 162	ALA 630
B	VAL 44	THR 507
L	ASP 1	ARG 217
H	GLU 1	ARG 220

There are 54 helices in PDB entry 8KDG. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	165	174	Right-handed alpha
Helix 2	AA2	A	175	207	Right-handed alpha
Helix 3	AA3	A	217	222	Right-handed 310
Helix 4	AA4	A	240	255	Right-handed alpha
Helix 5	AA5	A	281	285	Right-handed 310
Helix 6	AA6	A	286	301	Right-handed alpha
Helix 7	AA7	A	322	341	Right-handed alpha
Helix 8	AA8	A	349	353	Right-handed 310
Helix 9	AA9	A	355	371	Right-handed alpha
Helix 10	AB1	A	384	395	Right-handed alpha
Helix 11	AB2	A	414	427	Right-handed alpha
Helix 12	AB3	A	440	444	Right-handed 310
Helix 13	AB4	A	449	458	Right-handed alpha
Helix 14	AB5	A	469	473	Right-handed 310
Helix 15	AB6	A	504	507	Right-handed 310
Helix 16	AB7	A	508	514	Right-handed alpha
Helix 17	AB8	A	518	533	Right-handed alpha
Helix 18	AB9	A	533	539	Right-handed alpha
Helix 19	AC1	A	584	588	Right-handed 310
Helix 20	AC2	A	612	614	Right-handed 310
Helix 21	AC3	B	51	65	Right-handed alpha
Helix 22	AC4	B	66	71	Right-handed alpha
Helix 23	AC5	B	71	80	Right-handed alpha
Helix 24	AC6	B	81	111	Right-handed alpha
Helix 25	AC7	B	114	125	Right-handed alpha
Helix 26	AC8	B	125	139	Right-handed alpha
Helix 27	AC9	B	139	158	Right-handed alpha
Helix 28	AD1	B	159	161	Right-handed 310
Helix 29	AD2	B	167	189	Right-handed alpha
Helix 30	AD3	B	189	222	Right-handed alpha
Helix 31	AD4	B	239	255	Right-handed alpha
Helix 32	AD5	B	259	263	Right-handed 310
Helix 33	AD6	B	269	300	Right-handed alpha
Helix 34	AD7	B	301	308	Right-handed alpha
Helix 35	AD8	B	310	321	Right-handed alpha
Helix 36	AD9	B	322	324	Right-handed 310
Helix 37	AE1	B	325	356	Right-handed alpha
Helix 38	AE2	B	360	365	Right-handed 310
Helix 39	AE3	B	373	386	Right-handed alpha
Helix 40	AE4	B	387	390	Right-handed 310
Helix 41	AE5	B	392	395	Right-handed 310
Helix 42	AE6	B	396	422	Right-handed alpha
Helix 43	AE7	B	433	454	Right-handed alpha
Helix 44	AE8	B	454	467	Right-handed alpha
Helix 45	AE9	B	467	476	Right-handed alpha
Helix 46	AF1	B	482	501	Right-handed alpha
Helix 47	AF2	L	85	89	Right-handed 310
Helix 48	AF3	L	129	133	Right-handed 310
Helix 49	AF4	L	189	194	Right-handed alpha
Helix 50	AF5	H	28	32	Right-handed 310
Helix 51	AF6	H	62	65	Right-handed 310
Helix 52	AF7	H	87	91	Right-handed 310
Helix 53	AF8	H	136	140	Right-handed 310
Helix 54	AF9	H	194	198	Right-handed 310

There are 12 sheets in PDB entry 8KDG. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 7 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	399	401	first strand
Strand 2	A	375	379	parallel
Strand 3	A	344	347	parallel
Strand 4	A	305	307	parallel
Strand 5	A	260	261	parallel
Strand 6	A	224	227	parallel
Strand 7	A	465	467	parallel

Back to list of sheets
Back to top of page

There are 6 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	540	544	first strand
Strand 2	A	551	556	anti-parallel
Strand 3	A	562	567	anti-parallel
Strand 4	A	621	626	anti-parallel
Strand 5	A	592	598	anti-parallel
Strand 6	A	608	610	anti-parallel

Back to list of sheets
Back to top of page

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	A	573	574	first strand
Strand 2	L	99	100	parallel

Back to list of sheets
Back to top of page

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	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	76	81	anti-parallel
Strand 4	L	68	73	anti-parallel

Back to list of sheets
Back to top of page

There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	14	first strand
Strand 2	L	108	113	parallel
Strand 3	L	90	96	anti-parallel
Strand 4	L	39	44	anti-parallel
Strand 5	L	51	55	anti-parallel
Strand 6	L	59	60	anti-parallel

Back to list of sheets
Back to top of page

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	L	120	124	first strand
Strand 2	L	135	145	anti-parallel
Strand 3	L	179	188	anti-parallel
Strand 4	L	165	169	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	159	161	first strand
Strand 2	L	151	156	anti-parallel
Strand 3	L	197	203	anti-parallel
Strand 4	L	211	216	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	6	first strand
Strand 2	H	18	25	anti-parallel
Strand 3	H	78	83	anti-parallel
Strand 4	H	68	73	anti-parallel

Back to list of sheets
Back to top of page

There are 6 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	9	12	first strand
Strand 2	H	114	118	parallel
Strand 3	H	92	98	anti-parallel
Strand 4	H	34	39	anti-parallel
Strand 5	H	45	51	anti-parallel
Strand 6	H	58	60	anti-parallel

Back to list of sheets
Back to top of page

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	H	9	12	first strand
Strand 2	H	114	118	parallel
Strand 3	H	92	98	anti-parallel
Strand 4	H	109	110	anti-parallel

Back to list of sheets
Back to top of page

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	H	127	131	first strand
Strand 2	H	142	152	anti-parallel
Strand 3	H	181	191	anti-parallel
Strand 4	H	170	178	anti-parallel

Back to list of sheets
Back to top of page

There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	201	205	first strand
Strand 2	H	212	216	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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