Analysis of interatomic Contacts of Structural Units in PDB entry:
2QFD

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 2QFD entry

There are 10 chains in PDB entry 2QFD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 803	MET 923
B	LYS 803	MET 923
C	LYS 803	MET 923
D	LYS 803	MET 923
E	LYS 803	MET 923
F	LYS 803	MET 923
G	LYS 803	MET 923
H	LYS 803	MET 923
I	LYS 803	MET 923
J	LYS 803	MET 923

There are 21 helices in PDB entry 2QFD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	837	840	Right-handed 310
Helix 2	2	A	907	911	Right-handed 310
Helix 3	3	A	919	923	Right-handed 310
Helix 4	4	B	837	840	Right-handed 310
Helix 5	5	B	907	911	Right-handed 310
Helix 6	6	C	835	840	Right-handed alpha
Helix 7	7	C	907	911	Right-handed 310
Helix 8	8	D	835	840	Right-handed alpha
Helix 9	9	D	907	911	Right-handed 310
Helix 10	10	E	835	840	Right-handed alpha
Helix 11	11	E	907	911	Right-handed 310
Helix 12	12	F	835	840	Right-handed alpha
Helix 13	13	F	907	911	Right-handed 310
Helix 14	14	G	835	840	Right-handed alpha
Helix 15	15	G	907	911	Right-handed 310
Helix 16	16	H	838	840	Right-handed 310
Helix 17	17	H	907	911	Right-handed 310
Helix 18	18	I	837	840	Right-handed 310
Helix 19	19	I	907	911	Right-handed 310
Helix 20	20	J	838	840	Right-handed 310
Helix 21	21	J	907	911	Right-handed 310

There are 27 sheets in PDB entry 2QFD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, AA,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	816	819	first strand
Strand 2	A	807	810	anti-parallel
Strand 3	A	892	895	anti-parallel
Strand 4	A	902	904	anti-parallel
Strand 5	E	902	904	anti-parallel
Strand 6	E	892	896	anti-parallel
Strand 7	E	806	810	anti-parallel
Strand 8	E	816	819	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	823	826	first strand
Strand 2	A	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	842	846	first strand
Strand 2	A	857	864	anti-parallel
Strand 3	A	872	879	anti-parallel
Strand 4	A	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	816	819	first strand
Strand 2	B	807	810	anti-parallel
Strand 3	B	892	895	anti-parallel
Strand 4	B	902	904	anti-parallel
Strand 5	D	902	904	anti-parallel
Strand 6	D	892	895	anti-parallel
Strand 7	D	807	810	anti-parallel
Strand 8	D	816	819	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	823	826	first strand
Strand 2	B	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	842	846	first strand
Strand 2	B	857	864	anti-parallel
Strand 3	B	872	879	anti-parallel
Strand 4	B	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	816	819	first strand
Strand 2	C	806	810	anti-parallel
Strand 3	C	892	896	anti-parallel
Strand 4	C	902	903	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	823	826	first strand
Strand 2	C	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	842	845	first strand
Strand 2	C	857	864	anti-parallel
Strand 3	C	872	879	anti-parallel
Strand 4	C	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	823	826	first strand
Strand 2	D	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	842	846	first strand
Strand 2	D	857	864	anti-parallel
Strand 3	D	872	879	anti-parallel
Strand 4	D	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	823	826	first strand
Strand 2	E	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	842	843	first strand
Strand 2	E	857	864	anti-parallel
Strand 3	E	872	878	anti-parallel
Strand 4	E	883	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	818	819	first strand
Strand 2	F	807	810	anti-parallel
Strand 3	F	892	895	anti-parallel
Strand 4	F	902	903	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	823	826	first strand
Strand 2	F	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	842	846	first strand
Strand 2	F	857	864	anti-parallel
Strand 3	F	872	879	anti-parallel
Strand 4	F	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	816	819	first strand
Strand 2	G	807	810	anti-parallel
Strand 3	G	892	895	anti-parallel
Strand 4	G	902	904	anti-parallel
Strand 5	J	902	904	anti-parallel
Strand 6	J	892	895	anti-parallel
Strand 7	J	807	810	anti-parallel
Strand 8	J	818	819	anti-parallel

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There are 3 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	830	833	first strand
Strand 2	G	823	826	anti-parallel
Strand 3	G	916	917	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	842	846	first strand
Strand 2	G	857	864	anti-parallel
Strand 3	G	872	879	anti-parallel
Strand 4	G	882	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	816	819	first strand
Strand 2	H	807	810	anti-parallel
Strand 3	H	892	895	anti-parallel
Strand 4	H	902	903	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	823	826	first strand
Strand 2	H	830	833	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	842	846	first strand
Strand 2	H	857	864	anti-parallel
Strand 3	H	872	878	anti-parallel
Strand 4	H	883	887	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	816	819	first strand
Strand 2	I	807	810	anti-parallel
Strand 3	I	892	895	anti-parallel
Strand 4	I	902	903	anti-parallel

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There are 3 strands in X sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	830	833	first strand
Strand 2	I	823	826	anti-parallel
Strand 3	I	916	917	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	842	846	first strand
Strand 2	I	857	864	anti-parallel
Strand 3	I	872	879	anti-parallel
Strand 4	I	882	887	anti-parallel

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There are 3 strands in Z sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	830	833	first strand
Strand 2	J	823	826	anti-parallel
Strand 3	J	916	917	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	842	846	first strand
Strand 2	J	856	864	anti-parallel
Strand 3	J	872	879	anti-parallel
Strand 4	J	883	887	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: 2QFD

Analysis of interatomic Contacts of Structural Units in PDB entry:
2QFD