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

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 5NKM entry

There are 3 chains in PDB entry 5NKM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MSE 1	SER 420
B	MSE 59	ASP 364
C	MSE 1	VAL 49

There are 78 helices in PDB entry 5NKM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2	14	Right-handed alpha
Helix 2	AA2	A	15	18	Right-handed 310
Helix 3	AA3	A	38	46	Right-handed alpha
Helix 4	AA4	A	55	59	Right-handed 310
Helix 5	AA5	A	82	92	Right-handed alpha
Helix 6	AA6	A	97	118	Right-handed alpha
Helix 7	AA7	A	133	161	Right-handed alpha
Helix 8	AA8	A	174	179	Right-handed alpha
Helix 9	AA9	A	211	229	Right-handed alpha
Helix 10	AB1	A	234	238	Right-handed 310
Helix 11	AB2	A	290	300	Right-handed alpha
Helix 12	AB3	A	307	318	Right-handed alpha
Helix 13	AB4	A	318	324	Right-handed alpha
Helix 14	AB5	A	333	355	Right-handed alpha
Helix 15	AB6	A	383	399	Right-handed alpha
Helix 16	AB7	A	402	418	Right-handed alpha
Helix 17	AB8	B	67	71	Right-handed 310
Helix 18	AB9	B	76	80	Right-handed 310
Helix 19	AC1	B	98	108	Right-handed alpha
Helix 20	AC2	B	114	118	Right-handed 310
Helix 21	AC3	B	173	191	Right-handed alpha
Helix 22	AC4	B	203	214	Right-handed alpha
Helix 23	AC5	B	244	247	Right-handed 310
Helix 24	AC6	B	248	263	Right-handed alpha
Helix 25	AC7	B	306	319	Right-handed alpha
Helix 26	AC8	B	334	348	Right-handed alpha
Helix 27	AC9	B	348	364	Right-handed alpha
Helix 28	AD1	C	2	14	Right-handed alpha
Helix 29	AD2	C	38	46	Right-handed alpha
Helix 30	AD3	C	55	59	Right-handed 310
Helix 31	AD4	C	82	93	Right-handed alpha
Helix 32	AD5	C	97	118	Right-handed alpha
Helix 33	AD6	C	133	161	Right-handed alpha
Helix 34	AD7	C	174	179	Right-handed alpha
Helix 35	AD8	C	211	229	Right-handed alpha
Helix 36	AD9	C	234	238	Right-handed 310
Helix 37	AE1	C	290	300	Right-handed alpha
Helix 38	AE2	C	307	318	Right-handed alpha
Helix 39	AE3	C	318	324	Right-handed alpha
Helix 40	AE4	C	333	353	Right-handed alpha
Helix 41	AE5	C	381	399	Right-handed alpha
Helix 42	AE6	C	402	419	Right-handed alpha
Helix 43	AE7	D	67	71	Right-handed 310
Helix 44	AE8	D	76	80	Right-handed 310
Helix 45	AE9	D	98	108	Right-handed alpha
Helix 46	AF1	D	114	118	Right-handed 310
Helix 47	AF2	D	172	191	Right-handed alpha
Helix 48	AF3	D	203	214	Right-handed alpha
Helix 49	AF4	D	244	247	Right-handed 310
Helix 50	AF5	D	248	263	Right-handed alpha
Helix 51	AF6	D	306	319	Right-handed alpha
Helix 52	AF7	D	334	348	Right-handed alpha
Helix 53	AF8	D	348	363	Right-handed alpha
Helix 54	AF9	E	2	14	Right-handed alpha
Helix 55	AG1	E	38	46	Right-handed alpha
Helix 56	AG2	E	55	59	Right-handed 310
Helix 57	AG3	E	82	93	Right-handed alpha
Helix 58	AG4	E	97	118	Right-handed alpha
Helix 59	AG5	E	133	161	Right-handed alpha
Helix 60	AG6	E	206	229	Right-handed alpha
Helix 61	AG7	E	234	238	Right-handed 310
Helix 62	AG8	E	290	300	Right-handed alpha
Helix 63	AG9	E	307	318	Right-handed alpha
Helix 64	AH1	E	318	324	Right-handed alpha
Helix 65	AH2	E	333	355	Right-handed alpha
Helix 66	AH3	E	381	399	Right-handed alpha
Helix 67	AH4	E	402	418	Right-handed alpha
Helix 68	AH5	F	67	71	Right-handed 310
Helix 69	AH6	F	76	80	Right-handed 310
Helix 70	AH7	F	98	108	Right-handed alpha
Helix 71	AH8	F	114	118	Right-handed 310
Helix 72	AH9	F	173	191	Right-handed alpha
Helix 73	AI1	F	203	214	Right-handed alpha
Helix 74	AI2	F	244	247	Right-handed 310
Helix 75	AI3	F	248	263	Right-handed alpha
Helix 76	AI4	F	307	319	Right-handed alpha
Helix 77	AI5	F	334	348	Right-handed alpha
Helix 78	AI6	F	348	363	Right-handed alpha

There are 9 sheets in PDB entry 5NKM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 6 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	62	67	first strand
Strand 2	A	72	77	anti-parallel
Strand 3	A	23	28	parallel
Strand 4	A	122	127	parallel
Strand 5	A	186	191	parallel
Strand 6	A	249	251	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	B	63	64	first strand
Strand 2	B	138	143	anti-parallel
Strand 3	B	146	151	anti-parallel
Strand 4	B	87	92	parallel
Strand 5	B	193	198	parallel
Strand 6	B	233	239	parallel
Strand 7	B	269	271	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	B	63	64	first strand
Strand 2	B	138	143	anti-parallel
Strand 3	B	146	151	anti-parallel
Strand 4	B	87	92	parallel
Strand 5	B	193	198	parallel
Strand 6	B	233	239	parallel
Strand 7	B	279	281	parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	62	67	first strand
Strand 2	C	72	77	anti-parallel
Strand 3	C	23	28	parallel
Strand 4	C	122	127	parallel
Strand 5	C	186	191	parallel
Strand 6	C	249	251	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	D	63	64	first strand
Strand 2	D	138	143	anti-parallel
Strand 3	D	146	151	anti-parallel
Strand 4	D	87	92	parallel
Strand 5	D	193	198	parallel
Strand 6	D	233	239	parallel
Strand 7	D	269	271	parallel

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There are 7 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	63	64	first strand
Strand 2	D	138	143	anti-parallel
Strand 3	D	146	151	anti-parallel
Strand 4	D	87	92	parallel
Strand 5	D	193	198	parallel
Strand 6	D	233	239	parallel
Strand 7	D	279	281	parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	62	67	first strand
Strand 2	E	72	77	anti-parallel
Strand 3	E	23	28	parallel
Strand 4	E	122	127	parallel
Strand 5	E	186	192	parallel
Strand 6	E	249	252	parallel

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There are 7 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	63	64	first strand
Strand 2	F	138	143	anti-parallel
Strand 3	F	146	151	anti-parallel
Strand 4	F	87	92	parallel
Strand 5	F	193	198	parallel
Strand 6	F	233	239	parallel
Strand 7	F	269	271	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	F	63	64	first strand
Strand 2	F	138	143	anti-parallel
Strand 3	F	146	151	anti-parallel
Strand 4	F	87	92	parallel
Strand 5	F	193	198	parallel
Strand 6	F	233	239	parallel
Strand 7	F	279	281	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: 5NKM

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