Analysis of interatomic Contacts of Structural Units in PDB entry:
6LDB

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 6LDB entry

There are 4 chains in PDB entry 6LDB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN -1	LYS 667
B	ASN -1	LYS 667
C	ASN -1	LYS 667
D	ASN -1	LYS 667

There are 52 helices in PDB entry 6LDB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	30	35	Right-handed 310
Helix 2	AA2	A	58	62	Right-handed 310
Helix 3	AA3	A	75	80	Right-handed alpha
Helix 4	AA4	A	160	170	Right-handed alpha
Helix 5	AA5	A	390	405	Right-handed alpha
Helix 6	AA6	A	417	428	Right-handed alpha
Helix 7	AA7	A	441	446	Right-handed alpha
Helix 8	AA8	A	447	466	Right-handed alpha
Helix 9	AA9	A	487	507	Right-handed alpha
Helix 10	AB1	A	527	531	Right-handed 310
Helix 11	AB2	A	548	565	Right-handed alpha
Helix 12	AB3	A	592	608	Right-handed alpha
Helix 13	AB4	A	648	660	Right-handed alpha
Helix 14	AB5	B	30	36	Right-handed 310
Helix 15	AB6	B	58	62	Right-handed 310
Helix 16	AB7	B	75	80	Right-handed alpha
Helix 17	AB8	B	160	170	Right-handed alpha
Helix 18	AB9	B	390	405	Right-handed alpha
Helix 19	AC1	B	417	428	Right-handed alpha
Helix 20	AC2	B	441	446	Right-handed alpha
Helix 21	AC3	B	447	466	Right-handed alpha
Helix 22	AC4	B	487	507	Right-handed alpha
Helix 23	AC5	B	527	531	Right-handed 310
Helix 24	AC6	B	548	567	Right-handed alpha
Helix 25	AC7	B	592	608	Right-handed alpha
Helix 26	AC8	B	648	660	Right-handed alpha
Helix 27	AC9	C	30	36	Right-handed 310
Helix 28	AD1	C	58	62	Right-handed 310
Helix 29	AD2	C	75	80	Right-handed alpha
Helix 30	AD3	C	160	170	Right-handed alpha
Helix 31	AD4	C	390	405	Right-handed alpha
Helix 32	AD5	C	417	428	Right-handed alpha
Helix 33	AD6	C	441	446	Right-handed alpha
Helix 34	AD7	C	447	466	Right-handed alpha
Helix 35	AD8	C	487	507	Right-handed alpha
Helix 36	AD9	C	527	531	Right-handed 310
Helix 37	AE1	C	548	567	Right-handed alpha
Helix 38	AE2	C	592	608	Right-handed alpha
Helix 39	AE3	C	648	660	Right-handed alpha
Helix 40	AE4	D	30	36	Right-handed 310
Helix 41	AE5	D	58	62	Right-handed 310
Helix 42	AE6	D	75	80	Right-handed alpha
Helix 43	AE7	D	160	170	Right-handed alpha
Helix 44	AE8	D	390	405	Right-handed alpha
Helix 45	AE9	D	417	428	Right-handed alpha
Helix 46	AF1	D	441	446	Right-handed alpha
Helix 47	AF2	D	447	466	Right-handed alpha
Helix 48	AF3	D	487	507	Right-handed alpha
Helix 49	AF4	D	527	531	Right-handed 310
Helix 50	AF5	D	548	567	Right-handed alpha
Helix 51	AF6	D	592	608	Right-handed alpha
Helix 52	AF7	D	648	660	Right-handed alpha

There are 27 sheets in PDB entry 6LDB. 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,

There are 4 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	12	14	first strand
Strand 2	A	190	196	anti-parallel
Strand 3	A	82	88	anti-parallel
Strand 4	A	114	117	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	42	46	first strand
Strand 2	A	17	23	anti-parallel
Strand 3	A	65	72	anti-parallel
Strand 4	A	127	134	anti-parallel
Strand 5	A	94	99	anti-parallel
Strand 6	A	102	108	anti-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	145	146	first strand
Strand 2	A	175	176	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	199	214	first strand
Strand 2	A	220	234	anti-parallel
Strand 3	A	304	316	anti-parallel

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There are 4 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	288	296	first strand
Strand 2	A	275	282	anti-parallel
Strand 3	A	326	332	anti-parallel
Strand 4	A	346	352	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	357	360	first strand
Strand 2	A	363	366	anti-parallel
Strand 3	A	369	370	anti-parallel

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There are 9 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	373	377	first strand
Strand 2	A	408	410	parallel
Strand 3	A	430	434	parallel
Strand 4	A	471	478	parallel
Strand 5	A	513	517	parallel
Strand 6	A	534	537	parallel
Strand 7	A	570	574	parallel
Strand 8	A	613	618	parallel
Strand 9	A	373	377	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	12	14	first strand
Strand 2	B	190	196	anti-parallel
Strand 3	B	82	88	anti-parallel
Strand 4	B	114	117	anti-parallel

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There are 6 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	42	46	first strand
Strand 2	B	17	23	anti-parallel
Strand 3	B	65	72	anti-parallel
Strand 4	B	127	134	anti-parallel
Strand 5	B	94	99	anti-parallel
Strand 6	B	102	108	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	145	146	first strand
Strand 2	B	175	176	anti-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	199	214	first strand
Strand 2	B	220	234	anti-parallel
Strand 3	B	304	316	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	288	296	first strand
Strand 2	B	275	282	anti-parallel
Strand 3	B	326	332	anti-parallel
Strand 4	B	346	352	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	357	360	first strand
Strand 2	B	363	366	anti-parallel
Strand 3	B	369	370	anti-parallel

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There are 9 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	373	377	first strand
Strand 2	B	408	410	parallel
Strand 3	B	430	434	parallel
Strand 4	B	471	478	parallel
Strand 5	B	513	517	parallel
Strand 6	B	534	537	parallel
Strand 7	B	570	574	parallel
Strand 8	B	613	618	parallel
Strand 9	B	373	377	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	C	12	14	first strand
Strand 2	C	190	196	anti-parallel
Strand 3	C	82	88	anti-parallel
Strand 4	C	114	117	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	C	42	46	first strand
Strand 2	C	17	23	anti-parallel
Strand 3	C	65	72	anti-parallel
Strand 4	C	127	134	anti-parallel
Strand 5	C	94	99	anti-parallel
Strand 6	C	102	108	anti-parallel

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There are 2 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	145	146	first strand
Strand 2	C	175	176	anti-parallel

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There are 3 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	199	214	first strand
Strand 2	C	220	234	anti-parallel
Strand 3	C	304	316	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	288	296	first strand
Strand 2	C	275	282	anti-parallel
Strand 3	C	326	332	anti-parallel
Strand 4	C	346	352	anti-parallel

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There are 3 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	357	360	first strand
Strand 2	C	363	366	anti-parallel
Strand 3	C	369	370	anti-parallel

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There are 9 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	373	377	first strand
Strand 2	C	408	410	parallel
Strand 3	C	430	434	parallel
Strand 4	C	471	478	parallel
Strand 5	C	513	517	parallel
Strand 6	C	534	537	parallel
Strand 7	C	570	574	parallel
Strand 8	C	613	618	parallel
Strand 9	C	373	377	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	D	12	14	first strand
Strand 2	D	190	196	anti-parallel
Strand 3	D	82	88	anti-parallel
Strand 4	D	114	117	anti-parallel

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There are 6 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	42	46	first strand
Strand 2	D	17	23	anti-parallel
Strand 3	D	65	72	anti-parallel
Strand 4	D	127	134	anti-parallel
Strand 5	D	94	99	anti-parallel
Strand 6	D	102	107	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	D	199	214	first strand
Strand 2	D	220	234	anti-parallel
Strand 3	D	305	316	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	288	296	first strand
Strand 2	D	275	282	anti-parallel
Strand 3	D	326	332	anti-parallel
Strand 4	D	346	352	anti-parallel

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There are 3 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	357	360	first strand
Strand 2	D	363	366	anti-parallel
Strand 3	D	369	370	anti-parallel

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There are 9 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	373	377	first strand
Strand 2	D	408	410	parallel
Strand 3	D	430	434	parallel
Strand 4	D	471	478	parallel
Strand 5	D	513	517	parallel
Strand 6	D	534	537	parallel
Strand 7	D	570	574	parallel
Strand 8	D	613	618	parallel
Strand 9	D	373	377	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: 6LDB

Analysis of interatomic Contacts of Structural Units in PDB entry:
6LDB