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

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 6VDD entry

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

Chain ID	Initial residue	Terminal residue
A	ARG 321	HIS 908
B	G 1	A 11
C	C 7	A 20
D	GLY 322	HIS 908
E	G 1	A 11
F	G 8	A 20

There are 48 helices in PDB entry 6VDD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	329	337	Right-handed alpha
Helix 2	AA2	A	379	392	Right-handed alpha
Helix 3	AA3	A	401	411	Right-handed alpha
Helix 4	AA4	A	423	431	Right-handed alpha
Helix 5	AA5	A	438	448	Right-handed alpha
Helix 6	AA6	A	475	499	Right-handed alpha
Helix 7	AA7	A	501	508	Right-handed alpha
Helix 8	AA8	A	508	523	Right-handed alpha
Helix 9	AA9	A	527	554	Right-handed alpha
Helix 10	AB1	A	561	571	Right-handed alpha
Helix 11	AB2	A	588	600	Right-handed alpha
Helix 12	AB3	A	601	627	Right-handed alpha
Helix 13	AB4	A	661	669	Right-handed alpha
Helix 14	AB5	A	687	698	Right-handed alpha
Helix 15	AB6	A	699	708	Right-handed alpha
Helix 16	AB7	A	711	722	Right-handed alpha
Helix 17	AB8	A	724	728	Right-handed 310
Helix 18	AB9	A	729	745	Right-handed alpha
Helix 19	AC1	A	748	757	Right-handed alpha
Helix 20	AC2	A	759	774	Right-handed alpha
Helix 21	AC3	A	774	792	Right-handed alpha
Helix 22	AC4	A	805	808	Right-handed 310
Helix 23	AC5	A	811	849	Right-handed alpha
Helix 24	AC6	A	871	885	Right-handed alpha
Helix 25	AC7	D	329	337	Right-handed alpha
Helix 26	AC8	D	379	392	Right-handed alpha
Helix 27	AC9	D	401	411	Right-handed alpha
Helix 28	AD1	D	423	431	Right-handed alpha
Helix 29	AD2	D	438	448	Right-handed alpha
Helix 30	AD3	D	474	499	Right-handed alpha
Helix 31	AD4	D	501	508	Right-handed alpha
Helix 32	AD5	D	508	523	Right-handed alpha
Helix 33	AD6	D	527	553	Right-handed alpha
Helix 34	AD7	D	561	571	Right-handed alpha
Helix 35	AD8	D	588	600	Right-handed alpha
Helix 36	AD9	D	602	625	Right-handed alpha
Helix 37	AE1	D	661	669	Right-handed alpha
Helix 38	AE2	D	687	698	Right-handed alpha
Helix 39	AE3	D	699	708	Right-handed alpha
Helix 40	AE4	D	711	721	Right-handed alpha
Helix 41	AE5	D	724	728	Right-handed 310
Helix 42	AE6	D	729	745	Right-handed alpha
Helix 43	AE7	D	748	756	Right-handed alpha
Helix 44	AE8	D	759	774	Right-handed alpha
Helix 45	AE9	D	776	792	Right-handed alpha
Helix 46	AF1	D	805	809	Right-handed 310
Helix 47	AF2	D	811	849	Right-handed alpha
Helix 48	AF3	D	871	885	Right-handed alpha

There are 10 sheets in PDB entry 6VDD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 6 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	322	324	first strand
Strand 2	A	370	374	parallel
Strand 3	A	358	364	anti-parallel
Strand 4	A	343	349	anti-parallel
Strand 5	A	397	399	parallel
Strand 6	A	419	422	parallel

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There are 2 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	524	525	first strand
Strand 2	A	632	633	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	636	638	first strand
Strand 2	A	648	650	anti-parallel

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There are 4 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	854	858	first strand
Strand 2	A	862	867	anti-parallel
Strand 3	A	679	685	anti-parallel
Strand 4	A	895	900	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	793	795	first strand
Strand 2	A	801	803	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	323	324	first strand
Strand 2	D	370	374	parallel
Strand 3	D	358	364	anti-parallel
Strand 4	D	343	349	anti-parallel
Strand 5	D	397	399	parallel
Strand 6	D	419	422	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	D	632	633	first strand
Strand 2	D	524	526	anti-parallel
Strand 3	D	671	672	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	636	638	first strand
Strand 2	D	648	650	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	D	854	858	first strand
Strand 2	D	862	867	anti-parallel
Strand 3	D	679	685	anti-parallel
Strand 4	D	895	900	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	D	793	795	first strand
Strand 2	D	801	803	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: 6VDD

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