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

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 5KNL entry

There is 1 chain in PDB entry 5KNL (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 14	PRO 660

There are105 helices in PDB entry 5KNL. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	16	28	Right-handed alpha
Helix 2	AA2	A	28	36	Right-handed alpha
Helix 3	AA3	A	46	60	Right-handed alpha
Helix 4	AA4	A	73	79	Right-handed 310
Helix 5	AA5	A	84	88	Right-handed 310
Helix 6	AA6	A	91	102	Right-handed alpha
Helix 7	AA7	A	116	123	Right-handed 310
Helix 8	AA8	A	132	146	Right-handed alpha
Helix 9	AA9	A	220	224	Right-handed 310
Helix 10	AB1	A	267	272	Right-handed alpha
Helix 11	AB2	A	281	285	Right-handed 310
Helix 12	AB3	A	286	304	Right-handed alpha
Helix 13	AB4	A	314	332	Right-handed alpha
Helix 14	AB5	A	339	349	Right-handed alpha
Helix 15	AB6	A	354	375	Right-handed alpha
Helix 16	AB7	A	389	392	Right-handed 310
Helix 17	AB8	A	410	418	Right-handed alpha
Helix 18	AB9	A	418	427	Right-handed alpha
Helix 19	AC1	A	436	450	Right-handed alpha
Helix 20	AC2	A	468	474	Right-handed 310
Helix 21	AC3	A	479	483	Right-handed 310
Helix 22	AC4	A	486	499	Right-handed alpha
Helix 23	AC5	A	500	503	Right-handed 310
Helix 24	AC6	A	514	518	Right-handed 310
Helix 25	AC7	A	522	528	Right-handed alpha
Helix 26	AC8	A	538	552	Right-handed alpha
Helix 27	AC9	A	578	582	Right-handed 310
Helix 28	AD1	A	591	598	Right-handed alpha
Helix 29	AD2	A	601	618	Right-handed alpha
Helix 30	AD3	A	618	630	Right-handed alpha
Helix 31	AD4	A	632	640	Right-handed alpha
Helix 32	AD5	A	643	656	Right-handed alpha
Helix 33	AD6	A	662	679	Right-handed alpha
Helix 34	AD7	A	679	689	Right-handed alpha
Helix 35	AD8	A	718	737	Right-handed alpha
Helix 36	AD9	A	743	753	Right-handed alpha
Helix 37	AE1	A	790	794	Right-handed 310
Helix 38	AE2	A	796	801	Right-handed 310
Helix 39	AE3	A	818	834	Right-handed alpha
Helix 40	AE4	A	840	849	Right-handed alpha
Helix 41	AE5	A	855	875	Right-handed alpha
Helix 42	AE6	A	879	883	Right-handed 310
Helix 43	AE7	A	926	932	Right-handed alpha
Helix 44	AE8	A	932	937	Right-handed alpha
Helix 45	AE9	A	958	966	Right-handed alpha
Helix 46	AF1	A	969	978	Right-handed alpha
Helix 47	AF2	B	22	32	Right-handed alpha
Helix 48	AF3	B	37	41	Right-handed 310
Helix 49	AF4	B	56	60	Right-handed 310
Helix 50	AF5	C	4	18	Right-handed alpha
Helix 51	AF6	C	91	95	Right-handed 310
Helix 52	AF7	C	116	130	Right-handed alpha
Helix 53	AF8	C	138	148	Right-handed alpha
Helix 54	AF9	C	148	168	Right-handed alpha
Helix 55	AG1	D	16	28	Right-handed alpha
Helix 56	AG2	D	28	36	Right-handed alpha
Helix 57	AG3	D	46	60	Right-handed alpha
Helix 58	AG4	D	73	79	Right-handed 310
Helix 59	AG5	D	84	88	Right-handed 310
Helix 60	AG6	D	91	102	Right-handed alpha
Helix 61	AG7	D	116	123	Right-handed 310
Helix 62	AG8	D	132	146	Right-handed alpha
Helix 63	AG9	D	267	272	Right-handed alpha
Helix 64	AH1	D	281	285	Right-handed 310
Helix 65	AH2	D	286	304	Right-handed alpha
Helix 66	AH3	D	314	332	Right-handed alpha
Helix 67	AH4	D	339	349	Right-handed alpha
Helix 68	AH5	D	354	375	Right-handed alpha
Helix 69	AH6	D	389	392	Right-handed 310
Helix 70	AH7	D	410	418	Right-handed alpha
Helix 71	AH8	D	418	427	Right-handed alpha
Helix 72	AH9	D	436	450	Right-handed alpha
Helix 73	AI1	D	468	474	Right-handed 310
Helix 74	AI2	D	479	483	Right-handed 310
Helix 75	AI3	D	486	499	Right-handed alpha
Helix 76	AI4	D	500	503	Right-handed 310
Helix 77	AI5	D	514	518	Right-handed 310
Helix 78	AI6	D	522	528	Right-handed alpha
Helix 79	AI7	D	538	552	Right-handed alpha
Helix 80	AI8	D	578	582	Right-handed 310
Helix 81	AI9	D	591	598	Right-handed alpha
Helix 82	AJ1	D	601	618	Right-handed alpha
Helix 83	AJ2	D	618	630	Right-handed alpha
Helix 84	AJ3	D	632	640	Right-handed alpha
Helix 85	AJ4	D	643	656	Right-handed alpha
Helix 86	AJ5	D	662	679	Right-handed alpha
Helix 87	AJ6	D	679	689	Right-handed alpha
Helix 88	AJ7	D	718	737	Right-handed alpha
Helix 89	AJ8	D	743	753	Right-handed alpha
Helix 90	AJ9	D	796	801	Right-handed 310
Helix 91	AK1	D	818	834	Right-handed alpha
Helix 92	AK2	D	840	849	Right-handed alpha
Helix 93	AK3	D	855	875	Right-handed alpha
Helix 94	AK4	D	879	883	Right-handed 310
Helix 95	AK5	D	926	932	Right-handed alpha
Helix 96	AK6	D	958	966	Right-handed alpha
Helix 97	AK7	D	969	978	Right-handed alpha
Helix 98	AK8	E	22	32	Right-handed alpha
Helix 99	AK9	E	37	41	Right-handed 310
Helix 100	AL1	E	56	60	Right-handed 310
Helix 101	AL2	F	4	18	Right-handed alpha
Helix 102	AL3	F	91	95	Right-handed 310
Helix 103	AL4	F	116	130	Right-handed alpha
Helix 104	AL5	F	138	148	Right-handed alpha
Helix 105	AL6	F	148	168	Right-handed alpha

There are 20 sheets in PDB entry 5KNL. 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, AB6, AB7, AB8, AB9, AC1, AC2,

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	109	111	first strand
Strand 2	A	63	67	parallel
Strand 3	A	39	43	parallel
Strand 4	A	125	128	parallel
Strand 5	A	149	156	parallel
Strand 6	A	159	165	anti-parallel
Strand 7	A	383	387	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	A	170	172	first strand
Strand 2	A	261	263	anti-parallel

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There are 7 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	227	228	first strand
Strand 2	A	209	213	anti-parallel
Strand 3	A	253	257	anti-parallel
Strand 4	A	182	189	anti-parallel
Strand 5	A	193	196	anti-parallel
Strand 6	A	236	238	anti-parallel
Strand 7	A	230	231	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	A	227	228	first strand
Strand 2	A	209	213	anti-parallel
Strand 3	A	253	257	anti-parallel
Strand 4	A	182	189	anti-parallel
Strand 5	A	248	250	anti-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	A	506	509	first strand
Strand 2	A	458	462	parallel
Strand 3	A	429	433	parallel
Strand 4	A	531	534	parallel
Strand 5	A	556	562	parallel
Strand 6	A	565	571	anti-parallel
Strand 7	A	885	889	anti-parallel
Strand 8	A	894	898	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	A	905	908	first strand
Strand 2	A	911	914	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	A	919	923	first strand
Strand 2	A	1007	1011	parallel
Strand 3	A	988	997	anti-parallel
Strand 4	A	940	947	anti-parallel
Strand 5	A	950	954	anti-parallel

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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	A	919	923	first strand
Strand 2	A	1007	1011	parallel
Strand 3	A	988	997	anti-parallel
Strand 4	A	1002	1004	anti-parallel

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There are 5 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	12	16	first strand
Strand 2	B	2	7	anti-parallel
Strand 3	B	65	70	parallel
Strand 4	B	42	45	anti-parallel
Strand 5	B	48	49	anti-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	C	25	31	first strand
Strand 2	C	34	43	anti-parallel
Strand 3	C	54	60	anti-parallel
Strand 4	C	71	74	anti-parallel

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There are 7 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	109	111	first strand
Strand 2	D	63	67	parallel
Strand 3	D	39	43	parallel
Strand 4	D	125	128	parallel
Strand 5	D	149	156	parallel
Strand 6	D	159	165	anti-parallel
Strand 7	D	383	387	anti-parallel

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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	D	170	172	first strand
Strand 2	D	261	263	anti-parallel

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There are 7 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	227	228	first strand
Strand 2	D	209	213	anti-parallel
Strand 3	D	253	256	anti-parallel
Strand 4	D	182	189	anti-parallel
Strand 5	D	193	196	anti-parallel
Strand 6	D	236	238	anti-parallel
Strand 7	D	230	231	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	227	228	first strand
Strand 2	D	209	213	anti-parallel
Strand 3	D	253	256	anti-parallel
Strand 4	D	182	189	anti-parallel
Strand 5	D	248	250	anti-parallel

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There are 8 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	506	509	first strand
Strand 2	D	458	462	parallel
Strand 3	D	429	433	parallel
Strand 4	D	531	534	parallel
Strand 5	D	556	562	parallel
Strand 6	D	565	571	anti-parallel
Strand 7	D	885	889	anti-parallel
Strand 8	D	894	898	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	905	908	first strand
Strand 2	D	911	914	anti-parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	920	923	first strand
Strand 2	D	1008	1011	parallel
Strand 3	D	988	997	anti-parallel
Strand 4	D	940	947	anti-parallel
Strand 5	D	950	954	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	920	923	first strand
Strand 2	D	1008	1011	parallel
Strand 3	D	988	997	anti-parallel
Strand 4	D	1002	1004	anti-parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	12	16	first strand
Strand 2	E	2	7	anti-parallel
Strand 3	E	66	70	parallel
Strand 4	E	42	45	anti-parallel
Strand 5	E	48	49	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	25	31	first strand
Strand 2	F	34	43	anti-parallel
Strand 3	F	54	60	anti-parallel
Strand 4	F	71	74	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: 5KNL

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