Analysis of interatomic Contacts of Structural Units in PDB entry:
3KFD

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 3KFD entry

There are 12 chains in PDB entry 3KFD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 1	SER 112
B	ALA 1	SER 112
E	ALA 21	GLU 128
F	ALA 21	PHE 126
I	ALA 9	ILE 85
J	ALA 9	LYS 84
C	ALA 1	SER 112
D	ALA 1	SER 112
G	GLY 20	GLU 128
H	ALA 21	PHE 126
K	ALA 9	ILE 85
L	ALA 9	LYS 84

There are 16 helices in PDB entry 3KFD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	3	8	Right-handed alpha
Helix 2	2	A	56	69	Right-handed alpha
Helix 3	3	B	3	8	Right-handed alpha
Helix 4	4	B	56	69	Right-handed alpha
Helix 5	5	E	119	122	Right-handed 310
Helix 6	6	F	119	122	Right-handed 310
Helix 7	7	J	49	53	Right-handed 310
Helix 8	8	J	59	63	Right-handed 310
Helix 9	9	C	3	8	Right-handed alpha
Helix 10	10	C	56	69	Right-handed alpha
Helix 11	11	D	4	8	Right-handed alpha
Helix 12	12	D	56	69	Right-handed alpha
Helix 13	13	G	119	121	Right-handed 310
Helix 14	14	H	119	121	Right-handed 310
Helix 15	15	L	49	53	Right-handed 310
Helix 16	16	L	59	63	Right-handed 310

There are 32 sheets in PDB entry 3KFD. 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, AB, AC, AD, AE, AF,

There are 2 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	16	18	first strand
Strand 2	A	43	45	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	21	23	first strand
Strand 2	A	38	40	anti-parallel

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There are 3 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	33	35	first strand
Strand 2	A	78	92	anti-parallel
Strand 3	A	95	111	anti-parallel

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There are 2 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	16	18	first strand
Strand 2	B	43	45	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	21	23	first strand
Strand 2	B	38	40	anti-parallel

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There are 2 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	78	92	first strand
Strand 2	B	95	111	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	27	29	first strand
Strand 2	E	51	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	32	35	first strand
Strand 2	E	72	79	anti-parallel
Strand 3	E	60	67	anti-parallel
Strand 4	E	108	115	anti-parallel
Strand 5	E	103	105	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	43	44	first strand
Strand 2	E	124	125	anti-parallel
Strand 3	E	98	99	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	F	27	29	first strand
Strand 2	F	51	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	32	35	first strand
Strand 2	F	73	79	anti-parallel
Strand 3	F	60	67	anti-parallel
Strand 4	F	109	115	anti-parallel
Strand 5	F	101	102	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	F	98	99	first strand
Strand 2	F	124	125	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	12	13	first strand
Strand 2	I	23	24	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	45	48	first strand
Strand 2	I	29	33	anti-parallel
Strand 3	I	74	75	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	J	11	13	first strand
Strand 2	J	23	25	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	42	48	first strand
Strand 2	J	29	35	anti-parallel
Strand 3	J	72	77	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	16	18	first strand
Strand 2	C	43	45	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	21	23	first strand
Strand 2	C	38	40	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	33	35	first strand
Strand 2	C	78	92	anti-parallel
Strand 3	C	95	111	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2	3	first strand
Strand 2	D	95	111	anti-parallel
Strand 3	D	78	92	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	D	16	18	first strand
Strand 2	D	43	45	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	21	23	first strand
Strand 2	D	38	40	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	27	29	first strand
Strand 2	G	51	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	32	35	first strand
Strand 2	G	72	79	anti-parallel
Strand 3	G	60	67	anti-parallel
Strand 4	G	108	115	anti-parallel
Strand 5	G	103	105	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	43	45	first strand
Strand 2	G	123	125	anti-parallel
Strand 3	G	98	99	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	27	29	first strand
Strand 2	H	51	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	34	35	first strand
Strand 2	H	73	79	anti-parallel
Strand 3	H	60	67	anti-parallel
Strand 4	H	109	115	anti-parallel
Strand 5	H	101	102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	43	45	first strand
Strand 2	H	123	125	anti-parallel
Strand 3	H	98	99	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	12	13	first strand
Strand 2	K	23	24	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	45	48	first strand
Strand 2	K	29	33	anti-parallel
Strand 3	K	74	77	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	11	13	first strand
Strand 2	L	23	25	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	42	48	first strand
Strand 2	L	29	35	anti-parallel
Strand 3	L	72	77	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: 3KFD

Analysis of interatomic Contacts of Structural Units in PDB entry:
3KFD