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

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 5AVM entry

There are 8 chains in PDB entry 5AVM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 53	VAL 333
B	LEU 51	VAL 333
C	GLU 53	VAL 333
D	LEU 51	VAL 333
E	GLU 53	VAL 333
F	LEU 51	VAL 333
G	GLU 53	VAL 333
H	LEU 51	VAL 333

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	65	73	Right-handed alpha
Helix 2	AA2	A	78	93	Right-handed alpha
Helix 3	AA3	A	111	129	Right-handed alpha
Helix 4	AA4	A	162	165	Right-handed 310
Helix 5	AA5	A	167	171	Right-handed 310
Helix 6	AA6	A	189	197	Right-handed alpha
Helix 7	AA7	A	212	219	Right-handed alpha
Helix 8	AA8	A	224	234	Right-handed alpha
Helix 9	AA9	A	247	253	Right-handed alpha
Helix 10	AB1	A	254	257	Right-handed 310
Helix 11	AB2	A	274	283	Right-handed alpha
Helix 12	AB3	A	286	294	Right-handed alpha
Helix 13	AB4	A	305	313	Right-handed alpha
Helix 14	AB5	B	65	73	Right-handed alpha
Helix 15	AB6	B	78	93	Right-handed alpha
Helix 16	AB7	B	111	129	Right-handed alpha
Helix 17	AB8	B	163	165	Right-handed 310
Helix 18	AB9	B	167	171	Right-handed 310
Helix 19	AC1	B	189	197	Right-handed alpha
Helix 20	AC2	B	206	210	Right-handed 310
Helix 21	AC3	B	212	219	Right-handed alpha
Helix 22	AC4	B	224	234	Right-handed alpha
Helix 23	AC5	B	247	253	Right-handed alpha
Helix 24	AC6	B	254	257	Right-handed 310
Helix 25	AC7	B	274	284	Right-handed alpha
Helix 26	AC8	B	286	294	Right-handed alpha
Helix 27	AC9	B	305	314	Right-handed alpha
Helix 28	AD1	C	65	73	Right-handed alpha
Helix 29	AD2	C	78	93	Right-handed alpha
Helix 30	AD3	C	111	129	Right-handed alpha
Helix 31	AD4	C	162	165	Right-handed 310
Helix 32	AD5	C	167	171	Right-handed 310
Helix 33	AD6	C	189	197	Right-handed alpha
Helix 34	AD7	C	213	218	Right-handed alpha
Helix 35	AD8	C	224	235	Right-handed alpha
Helix 36	AD9	C	247	253	Right-handed alpha
Helix 37	AE1	C	254	257	Right-handed 310
Helix 38	AE2	C	274	283	Right-handed alpha
Helix 39	AE3	C	286	294	Right-handed alpha
Helix 40	AE4	C	305	313	Right-handed alpha
Helix 41	AE5	D	65	73	Right-handed alpha
Helix 42	AE6	D	78	93	Right-handed alpha
Helix 43	AE7	D	111	130	Right-handed alpha
Helix 44	AE8	D	163	165	Right-handed 310
Helix 45	AE9	D	189	197	Right-handed alpha
Helix 46	AF1	D	212	218	Right-handed alpha
Helix 47	AF2	D	224	235	Right-handed alpha
Helix 48	AF3	D	247	253	Right-handed alpha
Helix 49	AF4	D	254	257	Right-handed 310
Helix 50	AF5	D	274	283	Right-handed alpha
Helix 51	AF6	D	286	294	Right-handed alpha
Helix 52	AF7	D	305	314	Right-handed alpha
Helix 53	AF8	E	65	73	Right-handed alpha
Helix 54	AF9	E	78	93	Right-handed alpha
Helix 55	AG1	E	111	128	Right-handed alpha
Helix 56	AG2	E	163	165	Right-handed 310
Helix 57	AG3	E	167	171	Right-handed 310
Helix 58	AG4	E	189	198	Right-handed alpha
Helix 59	AG5	E	213	219	Right-handed alpha
Helix 60	AG6	E	224	235	Right-handed alpha
Helix 61	AG7	E	247	253	Right-handed alpha
Helix 62	AG8	E	254	257	Right-handed 310
Helix 63	AG9	E	274	284	Right-handed alpha
Helix 64	AH1	E	286	294	Right-handed alpha
Helix 65	AH2	E	305	316	Right-handed alpha
Helix 66	AH3	F	65	74	Right-handed alpha
Helix 67	AH4	F	78	93	Right-handed alpha
Helix 68	AH5	F	111	129	Right-handed alpha
Helix 69	AH6	F	163	165	Right-handed 310
Helix 70	AH7	F	167	171	Right-handed 310
Helix 71	AH8	F	189	197	Right-handed alpha
Helix 72	AH9	F	206	210	Right-handed 310
Helix 73	AI1	F	212	218	Right-handed alpha
Helix 74	AI2	F	224	234	Right-handed alpha
Helix 75	AI3	F	247	253	Right-handed alpha
Helix 76	AI4	F	254	257	Right-handed 310
Helix 77	AI5	F	274	284	Right-handed alpha
Helix 78	AI6	F	286	294	Right-handed alpha
Helix 79	AI7	F	305	314	Right-handed alpha
Helix 80	AI8	G	65	74	Right-handed alpha
Helix 81	AI9	G	78	93	Right-handed alpha
Helix 82	AJ1	G	111	128	Right-handed alpha
Helix 83	AJ2	G	162	165	Right-handed 310
Helix 84	AJ3	G	167	171	Right-handed 310
Helix 85	AJ4	G	189	197	Right-handed alpha
Helix 86	AJ5	G	212	218	Right-handed alpha
Helix 87	AJ6	G	224	235	Right-handed alpha
Helix 88	AJ7	G	247	253	Right-handed alpha
Helix 89	AJ8	G	254	256	Right-handed 310
Helix 90	AJ9	G	274	284	Right-handed alpha
Helix 91	AK1	G	286	292	Right-handed alpha
Helix 92	AK2	G	305	313	Right-handed alpha
Helix 93	AK3	H	65	73	Right-handed alpha
Helix 94	AK4	H	78	93	Right-handed alpha
Helix 95	AK5	H	111	128	Right-handed alpha
Helix 96	AK6	H	163	165	Right-handed 310
Helix 97	AK7	H	167	171	Right-handed 310
Helix 98	AK8	H	189	197	Right-handed alpha
Helix 99	AK9	H	213	218	Right-handed alpha
Helix 100	AL1	H	224	232	Right-handed alpha
Helix 101	AL2	H	247	253	Right-handed alpha
Helix 102	AL3	H	254	257	Right-handed 310
Helix 103	AL4	H	274	284	Right-handed alpha
Helix 104	AL5	H	286	294	Right-handed alpha
Helix 105	AL6	H	305	314	Right-handed alpha

There are 19 sheets in PDB entry 5AVM. 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,

There are 4 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	57	62	first strand
Strand 2	A	150	160	anti-parallel
Strand 3	A	96	107	anti-parallel
Strand 4	A	133	140	parallel

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There are 6 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	240	243	first strand
Strand 2	A	298	304	anti-parallel
Strand 3	A	176	181	anti-parallel
Strand 4	A	319	326	anti-parallel
Strand 5	A	261	265	anti-parallel
Strand 6	A	330	332	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	B	54	62	first strand
Strand 2	B	150	161	anti-parallel
Strand 3	B	97	107	anti-parallel
Strand 4	B	137	140	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	B	240	243	first strand
Strand 2	B	298	304	anti-parallel
Strand 3	B	176	181	anti-parallel
Strand 4	B	319	326	anti-parallel
Strand 5	B	261	266	anti-parallel
Strand 6	B	330	333	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	57	62	first strand
Strand 2	C	150	160	anti-parallel
Strand 3	C	96	107	anti-parallel
Strand 4	C	135	140	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	C	240	243	first strand
Strand 2	C	298	304	anti-parallel
Strand 3	C	176	181	anti-parallel
Strand 4	C	319	326	anti-parallel
Strand 5	C	261	266	anti-parallel
Strand 6	C	330	333	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	C	205	206	first strand
Strand 2	C	211	212	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	D	54	62	first strand
Strand 2	D	150	161	anti-parallel
Strand 3	D	97	107	anti-parallel
Strand 4	D	137	140	parallel

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There are 6 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	240	243	first strand
Strand 2	D	298	304	anti-parallel
Strand 3	D	176	181	anti-parallel
Strand 4	D	319	326	anti-parallel
Strand 5	D	261	266	anti-parallel
Strand 6	D	329	333	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	E	57	62	first strand
Strand 2	E	150	161	anti-parallel
Strand 3	E	96	107	anti-parallel
Strand 4	E	138	140	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	E	133	135	first strand
Strand 2	E	96	107	parallel
Strand 3	E	150	161	anti-parallel
Strand 4	H	54	62	parallel
Strand 5	H	150	161	anti-parallel
Strand 6	H	97	107	anti-parallel
Strand 7	H	137	140	parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	240	243	first strand
Strand 2	E	298	304	anti-parallel
Strand 3	E	176	181	anti-parallel
Strand 4	E	319	326	anti-parallel
Strand 5	E	261	266	anti-parallel
Strand 6	E	330	333	parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	205	206	first strand
Strand 2	E	211	212	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	54	62	first strand
Strand 2	F	150	161	anti-parallel
Strand 3	F	97	107	anti-parallel
Strand 4	F	133	140	parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	240	243	first strand
Strand 2	F	298	304	anti-parallel
Strand 3	F	176	181	anti-parallel
Strand 4	F	319	326	anti-parallel
Strand 5	F	261	266	anti-parallel
Strand 6	F	329	333	parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	57	62	first strand
Strand 2	G	150	160	anti-parallel
Strand 3	G	96	107	anti-parallel
Strand 4	G	133	140	parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	240	243	first strand
Strand 2	G	298	304	anti-parallel
Strand 3	G	176	181	anti-parallel
Strand 4	G	319	326	anti-parallel
Strand 5	G	261	266	anti-parallel
Strand 6	G	330	333	parallel

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There are 6 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	240	243	first strand
Strand 2	H	298	304	anti-parallel
Strand 3	H	176	181	anti-parallel
Strand 4	H	319	326	anti-parallel
Strand 5	H	261	265	anti-parallel
Strand 6	H	329	332	parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	205	206	first strand
Strand 2	H	211	212	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: 5AVM

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