Analysis of interatomic Contacts of Structural Units in PDB entry:
7MD5

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 7MD5 entry

There are 12 chains in PDB entry 7MD5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	HIS 1	GLU 808
B	HIS 1	ASP 591
M	ALA 691	ARG 720
N	ALA 691	ARG 720
S	GLY 1701	ASN 1721
T	PHE 1801	THR 1830
O	GLY 1101	ASN 1121
P	PHE 1201	THR 1230
Q	GLY 1301	ASN 1321
R	PHE 1401	THR 1430
U	GLY 1501	ASN 1521
V	PHE 1601	THR 1630

There are 37 helices in PDB entry 7MD5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	18	24	Right-handed 310
Helix 2	AA2	A	43	48	Right-handed alpha
Helix 3	AA3	A	139	143	Right-handed 310
Helix 4	AA4	A	150	152	Right-handed 310
Helix 5	AA5	A	221	224	Right-handed 310
Helix 6	AA6	A	255	264	Right-handed alpha
Helix 7	AA7	A	323	328	Right-handed alpha
Helix 8	AA8	A	329	331	Right-handed 310
Helix 9	AA9	A	350	356	Right-handed alpha
Helix 10	AB1	A	435	447	Right-handed alpha
Helix 11	AB2	A	448	452	Right-handed 310
Helix 12	AB3	A	496	498	Right-handed 310
Helix 13	AB4	A	638	644	Right-handed 310
Helix 14	AB5	B	18	24	Right-handed 310
Helix 15	AB6	B	43	48	Right-handed alpha
Helix 16	AB7	B	139	143	Right-handed 310
Helix 17	AB8	B	255	264	Right-handed alpha
Helix 18	AB9	B	323	328	Right-handed alpha
Helix 19	AC1	B	329	331	Right-handed 310
Helix 20	AC2	B	350	357	Right-handed alpha
Helix 21	AC3	B	435	447	Right-handed alpha
Helix 22	AC4	B	448	452	Right-handed 310
Helix 23	AC5	B	496	498	Right-handed 310
Helix 24	AC6	M	692	715	Right-handed alpha
Helix 25	AC7	N	692	715	Right-handed alpha
Helix 26	AC8	S	1702	1707	Right-handed alpha
Helix 27	AC9	S	1712	1718	Right-handed alpha
Helix 28	AD1	T	1807	1820	Right-handed alpha
Helix 29	AD2	O	1102	1107	Right-handed alpha
Helix 30	AD3	O	1112	1118	Right-handed alpha
Helix 31	AD4	P	1207	1220	Right-handed alpha
Helix 32	AD5	Q	1302	1307	Right-handed alpha
Helix 33	AD6	Q	1312	1318	Right-handed alpha
Helix 34	AD7	R	1407	1420	Right-handed alpha
Helix 35	AD8	U	1502	1507	Right-handed alpha
Helix 36	AD9	U	1512	1518	Right-handed alpha
Helix 37	AE1	V	1607	1620	Right-handed alpha

There are 29 sheets in PDB entry 7MD5. 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 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	13	14	first strand
Strand 2	A	33	38	parallel
Strand 3	A	61	66	parallel
Strand 4	A	93	96	parallel
Strand 5	A	117	122	parallel
Strand 6	A	145	148	parallel

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There are 4 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	28	29	first strand
Strand 2	A	56	57	parallel
Strand 3	A	81	82	parallel
Strand 4	A	111	112	parallel

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There are 2 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	171	173	first strand
Strand 2	A	178	180	anti-parallel

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There are 2 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	212	216	first strand
Strand 2	A	226	228	anti-parallel

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There are 2 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	231	232	first strand
Strand 2	A	237	238	anti-parallel

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There are 4 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	252	254	first strand
Strand 2	A	246	248	anti-parallel
Strand 3	A	283	285	parallel
Strand 4	A	278	280	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	A	292	293	first strand
Strand 2	A	302	303	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	A	311	321	first strand
Strand 2	A	335	342	parallel
Strand 3	A	368	370	parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	363	364	first strand
Strand 2	A	387	388	parallel
Strand 3	A	420	421	parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	402	403	first strand
Strand 2	A	428	429	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	A	471	472	first strand
Strand 2	A	581	582	parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	475	480	first strand
Strand 2	A	485	489	anti-parallel
Strand 3	A	550	553	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	532	534	first strand
Strand 2	A	500	509	anti-parallel
Strand 3	A	561	570	anti-parallel
Strand 4	A	586	589	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	A	602	604	first strand
Strand 2	A	611	614	anti-parallel
Strand 3	A	767	770	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	A	759	762	first strand
Strand 2	A	627	634	anti-parallel
Strand 3	A	778	786	anti-parallel
Strand 4	A	799	804	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	13	14	first strand
Strand 2	B	33	38	parallel
Strand 3	B	61	66	parallel
Strand 4	B	93	96	parallel
Strand 5	B	117	122	parallel
Strand 6	B	144	148	parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	28	29	first strand
Strand 2	B	56	57	parallel
Strand 3	B	81	82	parallel
Strand 4	B	111	112	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	171	173	first strand
Strand 2	B	178	180	anti-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	B	212	216	first strand
Strand 2	B	226	228	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	231	233	first strand
Strand 2	B	236	238	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	252	254	first strand
Strand 2	B	246	248	anti-parallel
Strand 3	B	283	285	parallel
Strand 4	B	278	280	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	292	293	first strand
Strand 2	B	302	303	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	318	321	first strand
Strand 2	B	339	342	parallel
Strand 3	B	368	370	parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	335	336	first strand
Strand 2	B	363	364	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	B	387	388	first strand
Strand 2	B	420	421	parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	402	403	first strand
Strand 2	B	428	429	parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	471	472	first strand
Strand 2	B	581	582	parallel

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There are 3 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	475	480	first strand
Strand 2	B	485	489	anti-parallel
Strand 3	B	552	553	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	B	532	534	first strand
Strand 2	B	500	509	anti-parallel
Strand 3	B	561	570	anti-parallel
Strand 4	B	586	589	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: 7MD5

Analysis of interatomic Contacts of Structural Units in PDB entry:
7MD5