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

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 9LOD entry

There are 5 chains in PDB entry 9LOD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 19	ILE 282
B	GLY 237	THR 445
C	GLY 237	THR 445
D	GLY 237	SER 444
E	GLY 237	SER 444

There are 17 helices in PDB entry 9LOD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	309	314	Right-handed alpha
Helix 2	AA2	B	356	360	Right-handed 310
Helix 3	AA3	B	414	419	Right-handed alpha
Helix 4	AA4	B	432	436	Right-handed 310
Helix 5	AA5	C	309	315	Right-handed alpha
Helix 6	AA6	C	354	358	Right-handed 310
Helix 7	AA7	C	414	419	Right-handed alpha
Helix 8	AA8	C	432	436	Right-handed 310
Helix 9	AA9	D	246	252	Right-handed alpha
Helix 10	AB1	D	309	315	Right-handed alpha
Helix 11	AB2	D	354	358	Right-handed 310
Helix 12	AB3	D	414	419	Right-handed alpha
Helix 13	AB4	E	246	252	Right-handed alpha
Helix 14	AB5	E	310	315	Right-handed alpha
Helix 15	AB6	E	354	359	Right-handed alpha
Helix 16	AB7	E	414	419	Right-handed alpha
Helix 17	AB8	E	432	436	Right-handed 310

There are 34 sheets in PDB entry 9LOD. 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 3 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	24	26	first strand
Strand 2	A	40	45	anti-parallel
Strand 3	A	74	77	anti-parallel

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There are 3 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	33	35	first strand
Strand 2	A	96	101	parallel
Strand 3	A	81	83	anti-parallel

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There are 3 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	66	67	first strand
Strand 2	A	56	59	anti-parallel
Strand 3	A	85	86	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	105	108	first strand
Strand 2	A	122	125	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	113	114	first strand
Strand 2	A	185	186	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	140	145	first strand
Strand 2	A	131	137	anti-parallel
Strand 3	A	162	169	anti-parallel
Strand 4	A	176	177	anti-parallel

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There are 4 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	140	145	first strand
Strand 2	A	131	137	anti-parallel
Strand 3	A	162	169	anti-parallel
Strand 4	A	181	183	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	193	196	first strand
Strand 2	A	207	212	anti-parallel
Strand 3	A	244	247	anti-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	225	229	first strand
Strand 2	A	257	263	anti-parallel
Strand 3	A	270	272	anti-parallel

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There are 3 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	225	229	first strand
Strand 2	A	257	263	anti-parallel
Strand 3	A	276	277	anti-parallel

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There are 4 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	239	243	first strand
Strand 2	B	258	264	anti-parallel
Strand 3	B	303	307	anti-parallel
Strand 4	B	288	289	anti-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	B	274	278	first strand
Strand 2	B	319	324	anti-parallel
Strand 3	B	332	336	anti-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	B	293	294	first strand
Strand 2	B	300	301	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	347	351	first strand
Strand 2	B	362	372	anti-parallel
Strand 3	B	404	413	anti-parallel
Strand 4	B	391	393	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	B	347	351	first strand
Strand 2	B	362	372	anti-parallel
Strand 3	B	404	413	anti-parallel
Strand 4	B	397	398	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	387	388	first strand
Strand 2	B	377	382	anti-parallel
Strand 3	B	424	429	anti-parallel
Strand 4	B	437	439	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	C	239	243	first strand
Strand 2	C	258	266	anti-parallel
Strand 3	C	300	307	anti-parallel
Strand 4	C	288	289	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	C	239	243	first strand
Strand 2	C	258	266	anti-parallel
Strand 3	C	300	307	anti-parallel
Strand 4	C	293	294	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	C	282	284	first strand
Strand 2	C	274	279	anti-parallel
Strand 3	C	319	324	anti-parallel
Strand 4	C	332	336	anti-parallel

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There are 4 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	347	351	first strand
Strand 2	C	362	372	anti-parallel
Strand 3	C	404	413	anti-parallel
Strand 4	C	391	393	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	C	347	351	first strand
Strand 2	C	362	372	anti-parallel
Strand 3	C	404	413	anti-parallel
Strand 4	C	397	398	anti-parallel

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There are 4 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	386	388	first strand
Strand 2	C	377	383	anti-parallel
Strand 3	C	423	429	anti-parallel
Strand 4	C	437	441	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	239	243	first strand
Strand 2	D	258	266	anti-parallel
Strand 3	D	300	307	anti-parallel
Strand 4	D	288	289	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	239	243	first strand
Strand 2	D	258	266	anti-parallel
Strand 3	D	300	307	anti-parallel
Strand 4	D	293	294	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	D	282	284	first strand
Strand 2	D	274	279	anti-parallel
Strand 3	D	319	324	anti-parallel
Strand 4	D	335	336	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	D	347	351	first strand
Strand 2	D	362	372	anti-parallel
Strand 3	D	408	413	anti-parallel
Strand 4	D	391	393	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	347	351	first strand
Strand 2	D	362	372	anti-parallel
Strand 3	D	404	406	anti-parallel
Strand 4	D	397	398	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	386	387	first strand
Strand 2	D	377	383	anti-parallel
Strand 3	D	423	429	anti-parallel
Strand 4	D	437	441	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	E	239	243	first strand
Strand 2	E	258	266	anti-parallel
Strand 3	E	300	307	anti-parallel
Strand 4	E	288	289	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	239	243	first strand
Strand 2	E	258	266	anti-parallel
Strand 3	E	300	307	anti-parallel
Strand 4	E	293	294	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	E	282	284	first strand
Strand 2	E	274	279	anti-parallel
Strand 3	E	319	324	anti-parallel
Strand 4	E	332	336	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	347	351	first strand
Strand 2	E	362	372	anti-parallel
Strand 3	E	408	413	anti-parallel
Strand 4	E	391	393	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	E	347	351	first strand
Strand 2	E	362	372	anti-parallel
Strand 3	E	404	406	anti-parallel
Strand 4	E	397	398	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	E	386	387	first strand
Strand 2	E	377	383	anti-parallel
Strand 3	E	423	429	anti-parallel
Strand 4	E	437	441	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: 9LOD

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