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

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 5KDX entry

There are 2 chains in PDB entry 5KDX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 42	GLU 925
B	ALA 42	LEU 924

There are 79 helices in PDB entry 5KDX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	43	55	Right-handed alpha
Helix 2	AA2	A	62	90	Right-handed alpha
Helix 3	AA3	A	131	134	Right-handed 310
Helix 4	AA4	A	142	146	Right-handed 310
Helix 5	AA5	A	151	153	Right-handed 310
Helix 6	AA6	A	154	168	Right-handed alpha
Helix 7	AA7	A	186	197	Right-handed alpha
Helix 8	AA8	A	211	218	Right-handed alpha
Helix 9	AA9	A	231	242	Right-handed alpha
Helix 10	AB1	A	257	267	Right-handed alpha
Helix 11	AB2	A	289	300	Right-handed alpha
Helix 12	AB3	A	303	313	Right-handed alpha
Helix 13	AB4	A	320	324	Right-handed 310
Helix 14	AB5	A	338	359	Right-handed alpha
Helix 15	AB6	A	362	366	Right-handed 310
Helix 16	AB7	A	369	386	Right-handed alpha
Helix 17	AB8	A	395	407	Right-handed alpha
Helix 18	AB9	A	427	433	Right-handed alpha
Helix 19	AC1	A	485	489	Right-handed 310
Helix 20	AC2	A	560	574	Right-handed alpha
Helix 21	AC3	A	592	604	Right-handed alpha
Helix 22	AC4	A	606	617	Right-handed alpha
Helix 23	AC5	A	618	626	Right-handed alpha
Helix 24	AC6	A	636	646	Right-handed alpha
Helix 25	AC7	A	652	657	Right-handed alpha
Helix 26	AC8	A	691	703	Right-handed alpha
Helix 27	AC9	A	704	708	Right-handed 310
Helix 28	AD1	A	710	715	Right-handed 310
Helix 29	AD2	A	717	719	Right-handed 310
Helix 30	AD3	A	720	734	Right-handed alpha
Helix 31	AD4	A	744	757	Right-handed alpha
Helix 32	AD5	A	760	770	Right-handed alpha
Helix 33	AD6	A	778	798	Right-handed alpha
Helix 34	AD7	A	799	803	Right-handed 310
Helix 35	AD8	A	804	820	Right-handed alpha
Helix 36	AD9	A	821	826	Right-handed alpha
Helix 37	AE1	A	847	862	Right-handed alpha
Helix 38	AE2	A	865	872	Right-handed alpha
Helix 39	AE3	A	877	888	Right-handed alpha
Helix 40	AE4	A	904	908	Right-handed 310
Helix 41	AE5	B	43	55	Right-handed alpha
Helix 42	AE6	B	62	90	Right-handed alpha
Helix 43	AE7	B	131	134	Right-handed 310
Helix 44	AE8	B	142	147	Right-handed 310
Helix 45	AE9	B	151	153	Right-handed 310
Helix 46	AF1	B	154	168	Right-handed alpha
Helix 47	AF2	B	186	197	Right-handed alpha
Helix 48	AF3	B	211	218	Right-handed alpha
Helix 49	AF4	B	231	242	Right-handed alpha
Helix 50	AF5	B	257	267	Right-handed alpha
Helix 51	AF6	B	289	300	Right-handed alpha
Helix 52	AF7	B	303	313	Right-handed alpha
Helix 53	AF8	B	320	324	Right-handed 310
Helix 54	AF9	B	338	360	Right-handed alpha
Helix 55	AG1	B	362	366	Right-handed 310
Helix 56	AG2	B	369	384	Right-handed alpha
Helix 57	AG3	B	395	407	Right-handed alpha
Helix 58	AG4	B	427	433	Right-handed alpha
Helix 59	AG5	B	485	489	Right-handed 310
Helix 60	AG6	B	560	574	Right-handed alpha
Helix 61	AG7	B	592	602	Right-handed alpha
Helix 62	AG8	B	606	617	Right-handed alpha
Helix 63	AG9	B	618	626	Right-handed alpha
Helix 64	AH1	B	636	647	Right-handed alpha
Helix 65	AH2	B	652	657	Right-handed alpha
Helix 66	AH3	B	691	703	Right-handed alpha
Helix 67	AH4	B	704	708	Right-handed 310
Helix 68	AH5	B	710	715	Right-handed 310
Helix 69	AH6	B	720	735	Right-handed alpha
Helix 70	AH7	B	744	757	Right-handed alpha
Helix 71	AH8	B	760	770	Right-handed alpha
Helix 72	AH9	B	778	797	Right-handed alpha
Helix 73	AI1	B	799	803	Right-handed 310
Helix 74	AI2	B	804	820	Right-handed alpha
Helix 75	AI3	B	821	826	Right-handed alpha
Helix 76	AI4	B	847	862	Right-handed alpha
Helix 77	AI5	B	865	872	Right-handed alpha
Helix 78	AI6	B	877	888	Right-handed alpha
Helix 79	AI7	B	904	908	Right-handed 310

There are 14 sheets in PDB entry 5KDX. 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,

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	A	105	107	first strand
Strand 2	A	269	271	anti-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	A	113	118	first strand
Strand 2	A	124	129	anti-parallel
Strand 3	A	136	139	anti-parallel
Strand 4	A	246	249	parallel
Strand 5	A	220	223	parallel
Strand 6	A	178	183	parallel
Strand 7	A	201	203	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	A	325	327	first strand
Strand 2	A	330	332	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	440	445	first strand
Strand 2	A	538	544	anti-parallel
Strand 3	A	465	470	anti-parallel
Strand 4	A	516	518	anti-parallel

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There are 4 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	451	459	first strand
Strand 2	A	524	531	anti-parallel
Strand 3	A	476	481	anti-parallel
Strand 4	A	508	509	anti-parallel

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There are 6 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	551	553	first strand
Strand 2	A	578	583	parallel
Strand 3	A	586	591	anti-parallel
Strand 4	A	662	666	parallel
Strand 5	A	681	683	parallel
Strand 6	A	675	676	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	895	898	first strand
Strand 2	A	909	912	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	B	105	107	first strand
Strand 2	B	269	271	anti-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	113	118	first strand
Strand 2	B	124	129	anti-parallel
Strand 3	B	136	139	anti-parallel
Strand 4	B	246	249	parallel
Strand 5	B	220	223	parallel
Strand 6	B	178	183	parallel
Strand 7	B	201	203	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	325	327	first strand
Strand 2	B	330	332	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	440	445	first strand
Strand 2	B	538	544	anti-parallel
Strand 3	B	465	470	anti-parallel
Strand 4	B	516	518	anti-parallel

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There are 4 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	451	459	first strand
Strand 2	B	524	531	anti-parallel
Strand 3	B	476	481	anti-parallel
Strand 4	B	508	510	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	551	553	first strand
Strand 2	B	578	583	parallel
Strand 3	B	586	591	anti-parallel
Strand 4	B	662	666	parallel
Strand 5	B	681	683	parallel
Strand 6	B	675	676	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	895	898	first strand
Strand 2	B	909	912	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: 5KDX

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