Analysis of interatomic Contacts of Structural Units in PDB entry:
7MD4

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 7MD4 entry

There are 12 chains in PDB entry 7MD4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
N	LYS 694	VAL 715
M	PHE 705	VAL 715
B	HIS 1	ASP 910
A	VAL 7	LEU 909
U	GLY 1	ASN 21
V	ASN 3	THR 30
S	GLY 1	ASN 21
T	GLN 4	THR 30
Q	GLY 1	ASN 21
O	GLY 1	ASN 21
R	HIS 5	THR 27
P	HIS 5	THR 27

There are 35 helices in PDB entry 7MD4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	N	694	714	Right-handed alpha
Helix 2	AA2	M	706	714	Right-handed alpha
Helix 3	AA3	B	18	24	Right-handed 310
Helix 4	AA4	B	42	48	Right-handed alpha
Helix 5	AA5	B	132	137	Right-handed alpha
Helix 6	AA6	B	255	266	Right-handed alpha
Helix 7	AA7	B	314	318	Right-handed 310
Helix 8	AA8	B	324	329	Right-handed alpha
Helix 9	AA9	B	352	359	Right-handed alpha
Helix 10	AB1	B	435	447	Right-handed alpha
Helix 11	AB2	B	448	452	Right-handed 310
Helix 12	AB3	B	638	643	Right-handed 310
Helix 13	AB4	B	863	870	Right-handed alpha
Helix 14	AB5	A	18	24	Right-handed 310
Helix 15	AB6	A	42	48	Right-handed alpha
Helix 16	AB7	A	132	137	Right-handed alpha
Helix 17	AB8	A	255	266	Right-handed alpha
Helix 18	AB9	A	324	329	Right-handed alpha
Helix 19	AC1	A	352	359	Right-handed alpha
Helix 20	AC2	A	435	447	Right-handed alpha
Helix 21	AC3	A	448	452	Right-handed 310
Helix 22	AC4	A	638	643	Right-handed 310
Helix 23	AC5	A	863	870	Right-handed alpha
Helix 24	AC6	U	2	7	Right-handed alpha
Helix 25	AC7	U	12	18	Right-handed alpha
Helix 26	AC8	V	4	20	Right-handed alpha
Helix 27	AC9	S	2	7	Right-handed alpha
Helix 28	AD1	S	12	18	Right-handed alpha
Helix 29	AD2	T	5	20	Right-handed alpha
Helix 30	AD3	Q	2	7	Right-handed alpha
Helix 31	AD4	Q	12	18	Right-handed alpha
Helix 32	AD5	O	2	7	Right-handed alpha
Helix 33	AD6	O	12	18	Right-handed alpha
Helix 34	AD7	R	8	20	Right-handed alpha
Helix 35	AD8	P	9	20	Right-handed alpha

There are 34 sheets in PDB entry 7MD4. 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, AD3, AD4, AD5, AD6, AD7,

There are 5 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	6	11	first strand
Strand 2	B	26	38	parallel
Strand 3	B	56	57	parallel
Strand 4	B	81	82	parallel
Strand 5	B	111	112	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	B	6	11	first strand
Strand 2	B	26	38	parallel
Strand 3	B	61	66	parallel
Strand 4	B	91	96	parallel
Strand 5	B	116	120	parallel
Strand 6	B	144	146	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	B	231	232	first strand
Strand 2	B	237	238	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	B	246	248	first strand
Strand 2	B	252	254	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	B	278	280	first strand
Strand 2	B	283	285	anti-parallel

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There are 2 strands in AA6 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 AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	320	321	first strand
Strand 2	B	340	342	parallel
Strand 3	B	368	370	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	B	335	336	first strand
Strand 2	B	363	364	parallel
Strand 3	B	387	388	parallel
Strand 4	B	420	421	parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	398	403	first strand
Strand 2	B	425	429	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	B	471	473	first strand
Strand 2	B	581	583	parallel

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There are 3 strands in AB2 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	550	552	anti-parallel

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There are 4 strands in AB3 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	502	509	anti-parallel
Strand 3	B	561	569	anti-parallel
Strand 4	B	586	589	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	B	602	604	first strand
Strand 2	B	611	614	anti-parallel
Strand 3	B	767	770	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	B	759	763	first strand
Strand 2	B	627	634	anti-parallel
Strand 3	B	778	786	anti-parallel
Strand 4	B	799	804	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	818	821	first strand
Strand 2	B	829	832	anti-parallel
Strand 3	B	872	873	anti-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	B	860	862	first strand
Strand 2	B	842	851	anti-parallel
Strand 3	B	882	890	anti-parallel
Strand 4	B	894	895	anti-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	860	862	first strand
Strand 2	B	842	851	anti-parallel
Strand 3	B	882	890	anti-parallel
Strand 4	B	901	903	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	8	11	first strand
Strand 2	A	28	38	parallel
Strand 3	A	56	57	parallel
Strand 4	A	81	82	parallel
Strand 5	A	111	112	parallel

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There are 6 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	8	11	first strand
Strand 2	A	28	38	parallel
Strand 3	A	61	66	parallel
Strand 4	A	91	96	parallel
Strand 5	A	116	120	parallel
Strand 6	A	144	146	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	A	231	232	first strand
Strand 2	A	237	238	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

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

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There are 2 strands in AC5 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 AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	320	321	first strand
Strand 2	A	340	342	parallel
Strand 3	A	368	370	parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	335	336	first strand
Strand 2	A	363	364	parallel
Strand 3	A	387	388	parallel
Strand 4	A	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	A	398	403	first strand
Strand 2	A	425	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	A	471	473	first strand
Strand 2	A	581	583	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	A	475	480	first strand
Strand 2	A	485	489	anti-parallel
Strand 3	A	550	552	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	A	532	534	first strand
Strand 2	A	502	509	anti-parallel
Strand 3	A	561	569	anti-parallel
Strand 4	A	586	589	anti-parallel

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There are 3 strands in AD3 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 AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	759	763	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 3 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	818	821	first strand
Strand 2	A	829	832	anti-parallel
Strand 3	A	872	873	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	860	862	first strand
Strand 2	A	842	851	anti-parallel
Strand 3	A	882	890	anti-parallel
Strand 4	A	894	895	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	860	862	first strand
Strand 2	A	842	851	anti-parallel
Strand 3	A	882	890	anti-parallel
Strand 4	A	901	903	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: 7MD4

Analysis of interatomic Contacts of Structural Units in PDB entry:
7MD4