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

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 5LMS entry

There are 29 chains in PDB entry 5LMS (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	U 5	U 1542
B	VAL 7	GLN 240
C	GLY 2	VAL 207
D	GLY 2	ARG 209
E	ASP 5	GLY 154
F	MET 1	ALA 101
G	ALA 2	TRP 156
H	MET 1	TRP 138
I	GLU 2	ARG 128
J	LYS 3	THR 100
K	LYS 11	SER 129
L	PRO 5	ALA 128
M	ALA 2	GLY 119
N	ALA 2	TRP 61
O	PRO 2	GLY 89
P	MET 1	GLU 83
Q	PRO 2	LYS 100
R	PRO 16	LYS 88
S	PRO 2	ARG 81
T	ARG 8	ALA 106
V	GLY 2	LYS 25
W	ALA 1	LYS 71
X	LYS 3	VAL 170
Y	A 20	U 39
Z	C 1	G 7
Z	G 9	G 31
Z	U 33	G 45
Z	U 47	G 53
Z	C 56	A 76

There are 80 helices in PDB entry 5LMS. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	25	30	Right-handed 310
Helix 2	AA2	B	45	64	Right-handed alpha
Helix 3	AA3	B	74	78	Right-handed 310
Helix 4	AA4	B	79	86	Right-handed alpha
Helix 5	AA5	B	104	122	Right-handed alpha
Helix 6	AA6	B	133	146	Right-handed alpha
Helix 7	AA7	B	170	180	Right-handed alpha
Helix 8	AA8	B	210	227	Right-handed alpha
Helix 9	AA9	C	7	12	Right-handed alpha
Helix 10	AB1	C	28	47	Right-handed alpha
Helix 11	AB2	C	72	78	Right-handed alpha
Helix 12	AB3	C	82	95	Right-handed alpha
Helix 13	AB4	C	112	126	Right-handed alpha
Helix 14	AB5	C	129	144	Right-handed alpha
Helix 15	AB6	C	156	160	Right-handed 310
Helix 16	AB7	C	177	180	Right-handed 310
Helix 17	AB8	D	8	16	Right-handed alpha
Helix 18	AB9	D	41	45	Right-handed 310
Helix 19	AC1	D	52	69	Right-handed alpha
Helix 20	AC2	D	71	85	Right-handed alpha
Helix 21	AC3	D	90	99	Right-handed alpha
Helix 22	AC4	D	100	108	Right-handed alpha
Helix 23	AC5	D	113	123	Right-handed alpha
Helix 24	AC6	D	155	165	Right-handed alpha
Helix 25	AC7	D	190	194	Right-handed 310
Helix 26	AC8	D	199	208	Right-handed alpha
Helix 27	AC9	E	50	65	Right-handed alpha
Helix 28	AD1	E	103	114	Right-handed alpha
Helix 29	AD2	E	127	142	Right-handed alpha
Helix 30	AD3	E	144	152	Right-handed alpha
Helix 31	AD4	F	16	33	Right-handed alpha
Helix 32	AD5	F	68	70	Right-handed 310
Helix 33	AD6	F	71	82	Right-handed alpha
Helix 34	AD7	G	20	31	Right-handed alpha
Helix 35	AD8	G	35	54	Right-handed alpha
Helix 36	AD9	G	59	70	Right-handed alpha
Helix 37	AE1	G	92	110	Right-handed alpha
Helix 38	AE2	G	115	130	Right-handed alpha
Helix 39	AE3	G	133	145	Right-handed alpha
Helix 40	AE4	G	148	152	Right-handed 310
Helix 41	AE5	H	4	20	Right-handed alpha
Helix 42	AE6	H	29	43	Right-handed alpha
Helix 43	AE7	H	102	106	Right-handed 310
Helix 44	AE8	H	120	128	Right-handed alpha
Helix 45	AE9	I	33	37	Right-handed alpha
Helix 46	AF1	I	40	46	Right-handed 310
Helix 47	AF2	I	69	89	Right-handed alpha
Helix 48	AF3	J	12	24	Right-handed alpha
Helix 49	AF4	K	57	75	Right-handed alpha
Helix 50	AF5	K	90	101	Right-handed alpha
Helix 51	AF6	L	6	13	Right-handed alpha
Helix 52	AF7	M	14	22	Right-handed alpha
Helix 53	AF8	M	27	38	Right-handed alpha
Helix 54	AF9	M	52	64	Right-handed alpha
Helix 55	AG1	M	66	84	Right-handed alpha
Helix 56	AG2	M	86	95	Right-handed alpha
Helix 57	AG3	M	107	112	Right-handed alpha
Helix 58	AG4	N	3	7	Right-handed 310
Helix 59	AG5	N	16	20	Right-handed 310
Helix 60	AG6	N	40	51	Right-handed alpha
Helix 61	AG7	O	4	16	Right-handed alpha
Helix 62	AG8	O	24	46	Right-handed alpha
Helix 63	AG9	O	50	74	Right-handed alpha
Helix 64	AH1	O	74	86	Right-handed alpha
Helix 65	AH2	P	52	63	Right-handed alpha
Helix 66	AH3	P	67	78	Right-handed alpha
Helix 67	AH4	Q	81	98	Right-handed alpha
Helix 68	AH5	R	21	26	Right-handed alpha
Helix 69	AH6	R	52	57	Right-handed alpha
Helix 70	AH7	R	59	77	Right-handed alpha
Helix 71	AH8	T	12	46	Right-handed alpha
Helix 72	AH9	T	49	70	Right-handed alpha
Helix 73	AI1	T	73	93	Right-handed alpha
Helix 74	AI2	V	8	16	Right-handed alpha
Helix 75	AI3	W	17	19	Right-handed 310
Helix 76	AI4	W	37	44	Right-handed alpha
Helix 77	AI5	X	30	41	Right-handed alpha
Helix 78	AI6	X	61	78	Right-handed alpha
Helix 79	AI7	X	96	113	Right-handed alpha
Helix 80	AI8	X	128	144	Right-handed alpha

There are 29 sheets in PDB entry 5LMS. 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, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2,

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	B	32	34	first strand
Strand 2	B	41	42	anti-parallel

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There are 5 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	92	93	first strand
Strand 2	B	68	71	parallel
Strand 3	B	161	164	parallel
Strand 4	B	184	186	parallel
Strand 5	B	199	200	parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	52	59	parallel
Strand 3	C	64	70	anti-parallel
Strand 4	C	102	105	parallel

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There are 3 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	165	166	first strand
Strand 2	C	148	154	anti-parallel
Strand 3	C	170	171	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	C	165	166	first strand
Strand 2	C	148	154	anti-parallel
Strand 3	C	196	203	anti-parallel
Strand 4	C	182	189	anti-parallel

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There are 3 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	131	132	first strand
Strand 2	D	126	128	anti-parallel
Strand 3	D	146	148	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	D	176	177	first strand
Strand 2	D	182	183	anti-parallel

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There are 3 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	7	18	first strand
Strand 2	E	25	35	anti-parallel
Strand 3	E	42	48	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	80	84	first strand
Strand 2	E	87	93	anti-parallel
Strand 3	E	118	124	anti-parallel
Strand 4	E	100	101	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	F	36	47	first strand
Strand 2	F	57	67	anti-parallel
Strand 3	F	2	10	anti-parallel
Strand 4	F	85	92	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	98	99	first strand
Strand 2	R	29	30	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	G	73	79	first strand
Strand 2	G	84	90	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	23	27	first strand
Strand 2	H	56	62	anti-parallel
Strand 3	H	47	53	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	94	95	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	109	114	anti-parallel
Strand 4	H	117	119	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	13	20	anti-parallel
Strand 3	I	9	10	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	I	4	6	first strand
Strand 2	I	13	20	anti-parallel
Strand 3	I	60	66	anti-parallel
Strand 4	I	26	28	parallel
Strand 5	I	31	32	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	68	70	first strand
Strand 2	J	4	10	anti-parallel
Strand 3	J	73	74	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	68	70	first strand
Strand 2	J	4	10	anti-parallel
Strand 3	J	95	99	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	47	49	first strand
Strand 2	J	61	65	anti-parallel
Strand 3	N	56	58	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	39	43	first strand
Strand 2	K	28	33	anti-parallel
Strand 3	K	15	23	anti-parallel
Strand 4	K	77	85	parallel
Strand 5	K	104	110	parallel
Strand 6	R	85	86	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	65	69	first strand
Strand 2	L	53	60	anti-parallel
Strand 3	L	33	43	anti-parallel
Strand 4	L	82	85	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	2	8	first strand
Strand 2	P	17	23	anti-parallel
Strand 3	P	34	39	anti-parallel
Strand 4	P	49	51	anti-parallel

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There are 6 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	5	15	first strand
Strand 2	Q	18	22	anti-parallel
Strand 3	Q	41	45	anti-parallel
Strand 4	Q	69	79	parallel
Strand 5	Q	55	66	anti-parallel
Strand 6	Q	5	15	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	25	28	first strand
Strand 2	Q	35	38	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	31	32	first strand
Strand 2	S	48	52	parallel
Strand 3	S	57	61	anti-parallel

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There are 5 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	52	57	first strand
Strand 2	W	7	15	anti-parallel
Strand 3	W	21	26	anti-parallel
Strand 4	W	33	35	anti-parallel
Strand 5	W	64	66	parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	28	29	first strand
Strand 2	X	16	19	anti-parallel
Strand 3	X	56	60	parallel
Strand 4	X	44	47	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	85	90	first strand
Strand 2	X	115	120	parallel
Strand 3	X	161	167	anti-parallel
Strand 4	X	148	156	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: 5LMS

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