Analysis of interatomic Contacts of Structural Units in PDB entry:
9MDL

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 9MDL entry

There are 3 chains in PDB entry 9MDL (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 218	LEU 748
B	ASP 218	LEU 748
C	ASP 218	LEU 748

There are 23 helices in PDB entry 9MDL. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	228	232	Right-handed 310
Helix 2	AA2	A	274	278	Right-handed 310
Helix 3	AA3	A	286	290	Right-handed 310
Helix 4	AA4	A	466	473	Right-handed alpha
Helix 5	AA5	A	506	512	Right-handed alpha
Helix 6	AA6	A	546	556	Right-handed alpha
Helix 7	AA7	A	581	592	Right-handed alpha
Helix 8	AA8	A	659	663	Right-handed 310
Helix 9	AA9	B	272	279	Right-handed alpha
Helix 10	AB1	B	286	291	Right-handed 310
Helix 11	AB2	B	335	339	Right-handed 310
Helix 12	AB3	B	466	473	Right-handed alpha
Helix 13	AB4	B	506	512	Right-handed alpha
Helix 14	AB5	B	546	556	Right-handed alpha
Helix 15	AB6	B	581	593	Right-handed alpha
Helix 16	AB7	B	659	663	Right-handed 310
Helix 17	AB8	C	228	232	Right-handed 310
Helix 18	AB9	C	272	279	Right-handed alpha
Helix 19	AC1	C	286	290	Right-handed 310
Helix 20	AC2	C	468	473	Right-handed alpha
Helix 21	AC3	C	506	512	Right-handed alpha
Helix 22	AC4	C	546	556	Right-handed alpha
Helix 23	AC5	C	581	592	Right-handed alpha

There are 26 sheets in PDB entry 9MDL. 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,

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	A	236	238	first strand
Strand 2	A	241	243	anti-parallel

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There are 8 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	417	423	first strand
Strand 2	A	407	414	anti-parallel
Strand 3	A	476	484	anti-parallel
Strand 4	A	362	367	anti-parallel
Strand 5	A	322	330	anti-parallel
Strand 6	A	301	310	anti-parallel
Strand 7	A	388	396	anti-parallel
Strand 8	A	447	448	anti-parallel

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There are 8 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	417	423	first strand
Strand 2	A	407	414	anti-parallel
Strand 3	A	476	484	anti-parallel
Strand 4	A	362	367	anti-parallel
Strand 5	A	322	330	anti-parallel
Strand 6	A	301	310	anti-parallel
Strand 7	A	388	396	anti-parallel
Strand 8	A	460	461	anti-parallel

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There are 5 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	352	353	first strand
Strand 2	A	577	580	parallel
Strand 3	A	610	614	anti-parallel
Strand 4	A	516	520	parallel
Strand 5	A	525	528	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	489	490	first strand
Strand 2	A	496	497	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	A	558	560	first strand
Strand 2	A	563	565	anti-parallel
Strand 3	A	570	571	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	A	618	620	first strand
Strand 2	A	732	743	anti-parallel
Strand 3	A	648	649	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	A	618	620	first strand
Strand 2	A	732	743	anti-parallel
Strand 3	A	667	676	anti-parallel
Strand 4	A	705	712	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	A	653	658	first strand
Strand 2	A	721	726	anti-parallel
Strand 3	A	684	689	anti-parallel
Strand 4	A	694	698	anti-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	236	238	first strand
Strand 2	B	241	243	anti-parallel

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There are 8 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	417	423	first strand
Strand 2	B	407	414	anti-parallel
Strand 3	B	476	484	anti-parallel
Strand 4	B	363	367	anti-parallel
Strand 5	B	322	330	anti-parallel
Strand 6	B	300	310	anti-parallel
Strand 7	B	388	397	anti-parallel
Strand 8	B	447	448	anti-parallel

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There are 8 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	417	423	first strand
Strand 2	B	407	414	anti-parallel
Strand 3	B	476	484	anti-parallel
Strand 4	B	363	367	anti-parallel
Strand 5	B	322	330	anti-parallel
Strand 6	B	300	310	anti-parallel
Strand 7	B	388	397	anti-parallel
Strand 8	B	460	461	anti-parallel

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There are 5 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	352	353	first strand
Strand 2	B	577	580	parallel
Strand 3	B	610	614	anti-parallel
Strand 4	B	516	520	parallel
Strand 5	B	525	528	anti-parallel

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There are 2 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	489	490	first strand
Strand 2	B	496	497	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	558	560	first strand
Strand 2	B	563	565	anti-parallel
Strand 3	B	570	571	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	618	620	first strand
Strand 2	B	732	743	anti-parallel
Strand 3	B	667	676	anti-parallel
Strand 4	B	705	712	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	654	658	first strand
Strand 2	B	721	726	anti-parallel
Strand 3	B	684	689	anti-parallel
Strand 4	B	694	698	anti-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	C	236	238	first strand
Strand 2	C	241	243	anti-parallel

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There are 8 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	417	423	first strand
Strand 2	C	409	414	anti-parallel
Strand 3	C	476	482	anti-parallel
Strand 4	C	363	367	anti-parallel
Strand 5	C	323	330	anti-parallel
Strand 6	C	300	310	anti-parallel
Strand 7	C	388	397	anti-parallel
Strand 8	C	447	448	anti-parallel

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There are 8 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	417	423	first strand
Strand 2	C	409	414	anti-parallel
Strand 3	C	476	482	anti-parallel
Strand 4	C	363	367	anti-parallel
Strand 5	C	323	330	anti-parallel
Strand 6	C	300	310	anti-parallel
Strand 7	C	388	397	anti-parallel
Strand 8	C	460	461	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	352	353	first strand
Strand 2	C	577	580	parallel
Strand 3	C	610	614	anti-parallel
Strand 4	C	516	520	parallel
Strand 5	C	525	528	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	C	489	490	first strand
Strand 2	C	496	497	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	C	558	560	first strand
Strand 2	C	563	565	anti-parallel
Strand 3	C	570	571	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	C	618	620	first strand
Strand 2	C	732	743	anti-parallel
Strand 3	C	648	649	anti-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	C	618	620	first strand
Strand 2	C	732	743	anti-parallel
Strand 3	C	667	676	anti-parallel
Strand 4	C	705	712	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	653	658	first strand
Strand 2	C	721	726	anti-parallel
Strand 3	C	684	689	anti-parallel
Strand 4	C	694	698	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: 9MDL

Analysis of interatomic Contacts of Structural Units in PDB entry:
9MDL