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

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 9MDJ entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 218	LEU 748
B	ASP 218	GLU 746
Z	LYS 67	PRO 463

There are 34 helices in PDB entry 9MDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	227	232	Right-handed alpha
Helix 2	AA2	A	248	252	Right-handed 310
Helix 3	AA3	A	272	277	Right-handed alpha
Helix 4	AA4	A	286	291	Right-handed 310
Helix 5	AA5	A	466	473	Right-handed alpha
Helix 6	AA6	A	505	513	Right-handed alpha
Helix 7	AA7	A	546	556	Right-handed alpha
Helix 8	AA8	A	581	592	Right-handed alpha
Helix 9	AA9	A	659	663	Right-handed 310
Helix 10	AB1	B	227	233	Right-handed alpha
Helix 11	AB2	B	272	279	Right-handed alpha
Helix 12	AB3	B	286	290	Right-handed 310
Helix 13	AB4	B	463	471	Right-handed alpha
Helix 14	AB5	B	506	511	Right-handed alpha
Helix 15	AB6	B	547	555	Right-handed alpha
Helix 16	AB7	B	581	595	Right-handed alpha
Helix 17	AB8	B	659	663	Right-handed 310
Helix 18	AB9	Z	68	79	Right-handed alpha
Helix 19	AC1	Z	82	95	Right-handed alpha
Helix 20	AC2	Z	95	106	Right-handed alpha
Helix 21	AC3	Z	107	109	Right-handed 310
Helix 22	AC4	Z	110	116	Right-handed alpha
Helix 23	AC5	Z	119	133	Right-handed alpha
Helix 24	AC6	Z	146	151	Right-handed 310
Helix 25	AC7	Z	165	177	Right-handed alpha
Helix 26	AC8	Z	266	279	Right-handed alpha
Helix 27	AC9	Z	286	298	Right-handed alpha
Helix 28	AD1	Z	299	310	Right-handed alpha
Helix 29	AD2	Z	311	316	Right-handed alpha
Helix 30	AD3	Z	318	335	Right-handed alpha
Helix 31	AD4	Z	348	353	Right-handed 310
Helix 32	AD5	Z	358	362	Right-handed 310
Helix 33	AD6	Z	365	377	Right-handed alpha
Helix 34	AD7	Z	420	422	Right-handed 310

There are 23 sheets in PDB entry 9MDJ. 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,

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 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	294	295	first strand
Strand 2	A	525	531	anti-parallel
Strand 3	A	514	520	anti-parallel
Strand 4	A	610	614	parallel
Strand 5	A	577	580	anti-parallel
Strand 6	A	352	353	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	477	484	anti-parallel
Strand 4	A	362	367	anti-parallel
Strand 5	A	322	330	anti-parallel
Strand 6	A	300	310	anti-parallel
Strand 7	A	388	397	anti-parallel
Strand 8	A	447	448	anti-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	A	437	438	first strand
Strand 2	A	388	397	anti-parallel
Strand 3	A	460	461	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	704	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	235	238	first strand
Strand 2	B	241	244	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	418	first strand
Strand 2	B	411	414	anti-parallel
Strand 3	B	477	479	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	387	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	418	first strand
Strand 2	B	411	414	anti-parallel
Strand 3	B	477	479	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	387	397	anti-parallel
Strand 8	B	460	462	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	514	521	parallel
Strand 5	B	524	531	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	403	404	first strand
Strand 2	B	432	433	anti-parallel

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There are 2 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	545	546	first strand
Strand 2	B	604	605	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	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 3 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	618	620	first strand
Strand 2	B	732	740	anti-parallel
Strand 3	B	648	649	anti-parallel

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There are 4 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	618	620	first strand
Strand 2	B	732	740	anti-parallel
Strand 3	B	668	676	anti-parallel
Strand 4	B	705	712	anti-parallel

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There are 4 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	653	658	first strand
Strand 2	B	721	726	anti-parallel
Strand 3	B	684	688	anti-parallel
Strand 4	B	694	698	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	139	144	first strand
Strand 2	Z	204	210	anti-parallel
Strand 3	Z	248	258	parallel
Strand 4	Z	224	245	anti-parallel
Strand 5	Z	180	189	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	Z	139	144	first strand
Strand 2	Z	204	210	anti-parallel
Strand 3	Z	248	258	parallel
Strand 4	Z	224	245	anti-parallel
Strand 5	Z	217	221	anti-parallel

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There are 6 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	261	262	first strand
Strand 2	Z	341	347	parallel
Strand 3	Z	404	410	anti-parallel
Strand 4	Z	452	462	parallel
Strand 5	Z	437	449	anti-parallel
Strand 6	Z	380	383	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	Z	387	390	first strand
Strand 2	Z	430	433	anti-parallel
Strand 3	Z	417	418	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: 9MDJ

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