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

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 5MKN entry

There are 28 chains in PDB entry 5MKN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 2	LEU 72
B	MET 2	LEU 72
C	MET 2	LEU 72
D	MET 2	LEU 72
E	MET 2	LEU 72
F	MET 2	LEU 72
G	MET 2	LEU 72
H	MET 2	LEU 72
I	MET 2	LEU 72
J	MET 2	LEU 72
K	MET 2	LEU 72
L	MET 2	LEU 72
M	MET 2	LEU 72
N	MET 2	LEU 72
O	MET 2	LEU 72
P	MET 2	LEU 72
Q	MET 2	LEU 72
R	MET 2	LEU 72
T	MET 2	LEU 72
U	MET 2	LEU 72
V	MET 2	LEU 72
W	MET 2	LEU 72
X	MET 2	LEU 72
Y	MET 2	LEU 72
Z	MET 2	LEU 72
a	MET 2	LEU 72
b	MET 2	LEU 72
d	MET 1	LEU 72

There are 28 helices in PDB entry 5MKN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	8	13	Right-handed alpha
Helix 2	AA2	B	8	13	Right-handed alpha
Helix 3	AA3	C	8	13	Right-handed alpha
Helix 4	AA4	D	8	13	Right-handed alpha
Helix 5	AA5	E	8	13	Right-handed alpha
Helix 6	AA6	F	8	13	Right-handed alpha
Helix 7	AA7	G	8	13	Right-handed alpha
Helix 8	AA8	H	8	13	Right-handed alpha
Helix 9	AA9	I	8	14	Right-handed alpha
Helix 10	AB1	J	8	13	Right-handed alpha
Helix 11	AB2	K	8	13	Right-handed alpha
Helix 12	AB3	L	8	13	Right-handed alpha
Helix 13	AB4	M	8	13	Right-handed alpha
Helix 14	AB5	N	8	13	Right-handed alpha
Helix 15	AB6	O	8	13	Right-handed alpha
Helix 16	AB7	P	8	14	Right-handed alpha
Helix 17	AB8	Q	6	14	Right-handed alpha
Helix 18	AB9	R	8	14	Right-handed alpha
Helix 19	AC1	T	8	14	Right-handed alpha
Helix 20	AC2	U	8	13	Right-handed alpha
Helix 21	AC3	V	8	14	Right-handed alpha
Helix 22	AC4	W	8	13	Right-handed alpha
Helix 23	AC5	X	8	13	Right-handed alpha
Helix 24	AC6	Y	8	13	Right-handed alpha
Helix 25	AC7	Z	8	14	Right-handed alpha
Helix 26	AC8	a	8	14	Right-handed alpha
Helix 27	AC9	b	8	13	Right-handed alpha
Helix 28	AD1	d	8	13	Right-handed alpha

There are 4 sheets in PDB entry 5MKN. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 36 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	18	23	first strand
Strand 2	A	28	36	anti-parallel
Strand 3	A	42	49	anti-parallel
Strand 4	A	57	62	anti-parallel
Strand 5	G	67	71	anti-parallel
Strand 6	G	18	23	anti-parallel
Strand 7	G	28	36	anti-parallel
Strand 8	G	42	49	anti-parallel
Strand 9	G	57	62	anti-parallel
Strand 10	F	67	71	anti-parallel
Strand 11	F	18	23	anti-parallel
Strand 12	F	28	36	anti-parallel
Strand 13	F	42	49	anti-parallel
Strand 14	F	57	62	anti-parallel
Strand 15	E	67	71	anti-parallel
Strand 16	E	18	23	anti-parallel
Strand 17	E	28	36	anti-parallel
Strand 18	E	42	49	anti-parallel
Strand 19	E	57	62	anti-parallel
Strand 20	D	67	71	anti-parallel
Strand 21	D	18	23	anti-parallel
Strand 22	D	28	36	anti-parallel
Strand 23	D	42	49	anti-parallel
Strand 24	D	57	62	anti-parallel
Strand 25	C	67	72	anti-parallel
Strand 26	C	18	23	anti-parallel
Strand 27	C	28	36	anti-parallel
Strand 28	C	42	49	anti-parallel
Strand 29	C	57	62	anti-parallel
Strand 30	B	67	71	anti-parallel
Strand 31	B	18	23	anti-parallel
Strand 32	B	28	36	anti-parallel
Strand 33	B	42	49	anti-parallel
Strand 34	B	56	62	anti-parallel
Strand 35	A	67	71	anti-parallel
Strand 36	A	18	23	anti-parallel

Back to list of sheets
Back to top of page

There are 37 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	56	57	first strand
Strand 2	I	42	49	anti-parallel
Strand 3	I	60	62	anti-parallel
Strand 4	H	67	71	anti-parallel
Strand 5	H	18	23	anti-parallel
Strand 6	H	28	36	anti-parallel
Strand 7	H	42	49	anti-parallel
Strand 8	H	57	62	anti-parallel
Strand 9	N	67	71	anti-parallel
Strand 10	N	18	23	anti-parallel
Strand 11	N	28	36	anti-parallel
Strand 12	N	42	49	anti-parallel
Strand 13	N	57	62	anti-parallel
Strand 14	M	67	71	anti-parallel
Strand 15	M	18	23	anti-parallel
Strand 16	M	28	36	anti-parallel
Strand 17	M	42	49	anti-parallel
Strand 18	M	57	62	anti-parallel
Strand 19	L	67	71	anti-parallel
Strand 20	L	18	23	anti-parallel
Strand 21	L	28	36	anti-parallel
Strand 22	L	42	49	anti-parallel
Strand 23	L	57	62	anti-parallel
Strand 24	K	67	72	anti-parallel
Strand 25	K	18	23	anti-parallel
Strand 26	K	28	36	anti-parallel
Strand 27	K	42	49	anti-parallel
Strand 28	K	56	62	anti-parallel
Strand 29	J	67	71	anti-parallel
Strand 30	J	18	23	anti-parallel
Strand 31	J	28	36	anti-parallel
Strand 32	J	42	49	anti-parallel
Strand 33	J	57	62	anti-parallel
Strand 34	I	67	72	anti-parallel
Strand 35	I	18	23	anti-parallel
Strand 36	I	28	33	anti-parallel
Strand 37	I	42	49	anti-parallel

Back to list of sheets
Back to top of page

There are 37 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	56	57	first strand
Strand 2	P	42	49	anti-parallel
Strand 3	P	60	62	anti-parallel
Strand 4	O	67	71	anti-parallel
Strand 5	O	18	23	anti-parallel
Strand 6	O	28	36	anti-parallel
Strand 7	O	42	49	anti-parallel
Strand 8	O	56	62	anti-parallel
Strand 9	U	67	71	anti-parallel
Strand 10	U	18	23	anti-parallel
Strand 11	U	28	36	anti-parallel
Strand 12	U	42	49	anti-parallel
Strand 13	U	57	62	anti-parallel
Strand 14	T	67	71	anti-parallel
Strand 15	T	18	23	anti-parallel
Strand 16	T	28	36	anti-parallel
Strand 17	T	42	49	anti-parallel
Strand 18	T	56	62	anti-parallel
Strand 19	d	67	71	anti-parallel
Strand 20	d	18	23	anti-parallel
Strand 21	d	30	36	anti-parallel
Strand 22	d	42	48	anti-parallel
Strand 23	d	57	62	anti-parallel
Strand 24	R	67	72	anti-parallel
Strand 25	R	18	23	anti-parallel
Strand 26	R	28	36	anti-parallel
Strand 27	R	42	48	anti-parallel
Strand 28	R	56	62	anti-parallel
Strand 29	Q	67	72	anti-parallel
Strand 30	Q	18	23	anti-parallel
Strand 31	Q	28	36	anti-parallel
Strand 32	Q	42	49	anti-parallel
Strand 33	Q	57	62	anti-parallel
Strand 34	P	67	72	anti-parallel
Strand 35	P	18	23	anti-parallel
Strand 36	P	28	36	anti-parallel
Strand 37	P	42	49	anti-parallel

Back to list of sheets
Back to top of page

There are 36 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	20	23	first strand
Strand 2	V	28	36	anti-parallel
Strand 3	V	42	49	anti-parallel
Strand 4	V	57	62	anti-parallel
Strand 5	b	67	71	anti-parallel
Strand 6	b	18	23	anti-parallel
Strand 7	b	28	36	anti-parallel
Strand 8	b	42	48	anti-parallel
Strand 9	b	57	62	anti-parallel
Strand 10	a	67	72	anti-parallel
Strand 11	a	18	23	anti-parallel
Strand 12	a	28	36	anti-parallel
Strand 13	a	42	49	anti-parallel
Strand 14	a	56	62	anti-parallel
Strand 15	Z	67	71	anti-parallel
Strand 16	Z	18	23	anti-parallel
Strand 17	Z	28	36	anti-parallel
Strand 18	Z	42	48	anti-parallel
Strand 19	Z	56	62	anti-parallel
Strand 20	Y	67	71	anti-parallel
Strand 21	Y	17	23	anti-parallel
Strand 22	Y	28	36	anti-parallel
Strand 23	Y	42	48	anti-parallel
Strand 24	Y	56	62	anti-parallel
Strand 25	X	67	71	anti-parallel
Strand 26	X	18	23	anti-parallel
Strand 27	X	28	36	anti-parallel
Strand 28	X	42	49	anti-parallel
Strand 29	X	57	62	anti-parallel
Strand 30	W	67	71	anti-parallel
Strand 31	W	18	23	anti-parallel
Strand 32	W	28	36	anti-parallel
Strand 33	W	42	49	anti-parallel
Strand 34	W	60	62	anti-parallel
Strand 35	V	67	71	anti-parallel
Strand 36	V	20	23	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: 5MKN

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