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

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 3SKB entry

There are 5 chains in PDB entry 3SKB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 224	GLY 531
B	ARG 223	GLY 531
C	THR 224	GLY 531
D	THR 224	GLY 531
E	ARG 223	PRO 280

There are 20 helices in PDB entry 3SKB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	359	362	Right-handed 310
Helix 2	2	A	454	465	Right-handed alpha
Helix 3	3	B	359	362	Right-handed 310
Helix 4	4	B	454	465	Right-handed alpha
Helix 5	5	C	359	362	Right-handed 310
Helix 6	6	C	454	465	Right-handed alpha
Helix 7	7	D	359	362	Right-handed 310
Helix 8	8	D	454	465	Right-handed alpha
Helix 9	9	E	359	362	Right-handed 310
Helix 10	10	E	454	465	Right-handed alpha
Helix 11	11	F	359	362	Right-handed 310
Helix 12	12	F	454	465	Right-handed alpha
Helix 13	13	G	359	362	Right-handed 310
Helix 14	14	G	454	465	Right-handed alpha
Helix 15	15	H	359	362	Right-handed 310
Helix 16	16	H	454	465	Right-handed alpha
Helix 17	17	I	359	362	Right-handed 310
Helix 18	18	I	454	465	Right-handed alpha
Helix 19	19	J	359	362	Right-handed 310
Helix 20	20	J	454	465	Right-handed alpha

There are 31 sheets in PDB entry 3SKB. 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,

There are 4 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	448	451	first strand
Strand 2	A	429	437	anti-parallel
Strand 3	A	248	252	anti-parallel
Strand 4	A	505	506	anti-parallel

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There are 6 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	448	451	first strand
Strand 2	A	429	437	anti-parallel
Strand 3	A	496	500	anti-parallel
Strand 4	A	485	492	anti-parallel
Strand 5	A	472	478	anti-parallel
Strand 6	A	514	521	anti-parallel

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There are 8 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	440	442	first strand
Strand 2	A	381	389	parallel
Strand 3	A	329	337	anti-parallel
Strand 4	A	344	352	anti-parallel
Strand 5	A	364	369	anti-parallel
Strand 6	A	298	303	anti-parallel
Strand 7	A	286	292	anti-parallel
Strand 8	A	381	389	anti-parallel

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There are 4 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	448	451	first strand
Strand 2	B	429	437	anti-parallel
Strand 3	B	248	252	anti-parallel
Strand 4	B	505	506	anti-parallel

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There are 6 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	448	451	first strand
Strand 2	B	429	437	anti-parallel
Strand 3	B	496	500	anti-parallel
Strand 4	B	485	492	anti-parallel
Strand 5	B	472	478	anti-parallel
Strand 6	B	514	521	anti-parallel

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There are 7 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	440	442	first strand
Strand 2	B	380	389	parallel
Strand 3	B	286	292	anti-parallel
Strand 4	B	298	303	anti-parallel
Strand 5	B	364	369	anti-parallel
Strand 6	B	344	352	anti-parallel
Strand 7	F	442	443	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	440	442	first strand
Strand 2	B	380	389	parallel
Strand 3	B	329	337	anti-parallel
Strand 4	B	344	352	anti-parallel
Strand 5	F	442	443	anti-parallel

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There are 4 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	448	451	first strand
Strand 2	C	429	437	anti-parallel
Strand 3	C	248	252	anti-parallel
Strand 4	C	505	506	anti-parallel

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There are 6 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	448	451	first strand
Strand 2	C	429	437	anti-parallel
Strand 3	C	496	500	anti-parallel
Strand 4	C	485	492	anti-parallel
Strand 5	C	472	478	anti-parallel
Strand 6	C	514	521	anti-parallel

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There are 12 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	440	442	first strand
Strand 2	C	381	389	parallel
Strand 3	C	286	292	anti-parallel
Strand 4	C	298	303	anti-parallel
Strand 5	C	364	369	anti-parallel
Strand 6	C	344	352	anti-parallel
Strand 7	H	440	443	anti-parallel
Strand 8	H	381	389	parallel
Strand 9	H	286	292	anti-parallel
Strand 10	H	298	303	anti-parallel
Strand 11	H	364	369	anti-parallel
Strand 12	H	344	352	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	344	352	first strand
Strand 2	H	329	337	anti-parallel
Strand 3	H	381	389	anti-parallel
Strand 4	H	440	443	parallel
Strand 5	C	344	352	anti-parallel
Strand 6	C	329	337	anti-parallel
Strand 7	C	381	389	anti-parallel
Strand 8	C	440	442	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	448	451	first strand
Strand 2	D	429	437	anti-parallel
Strand 3	D	248	252	anti-parallel
Strand 4	D	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	448	451	first strand
Strand 2	D	429	437	anti-parallel
Strand 3	D	496	500	anti-parallel
Strand 4	D	485	492	anti-parallel
Strand 5	D	472	478	anti-parallel
Strand 6	D	514	521	anti-parallel

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There are 12 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	442	443	first strand
Strand 2	G	344	352	anti-parallel
Strand 3	G	364	369	anti-parallel
Strand 4	G	298	303	anti-parallel
Strand 5	G	286	292	anti-parallel
Strand 6	G	381	389	anti-parallel
Strand 7	G	440	443	parallel
Strand 8	D	344	352	anti-parallel
Strand 9	D	364	369	anti-parallel
Strand 10	D	298	303	anti-parallel
Strand 11	D	286	292	anti-parallel
Strand 12	D	380	389	anti-parallel

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There are 7 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	380	389	first strand
Strand 2	D	329	337	anti-parallel
Strand 3	D	344	352	anti-parallel
Strand 4	G	440	443	anti-parallel
Strand 5	G	381	389	parallel
Strand 6	G	329	337	anti-parallel
Strand 7	G	344	352	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	E	448	451	first strand
Strand 2	E	429	437	anti-parallel
Strand 3	E	248	252	anti-parallel
Strand 4	E	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	448	451	first strand
Strand 2	E	429	437	anti-parallel
Strand 3	E	496	500	anti-parallel
Strand 4	E	485	492	anti-parallel
Strand 5	E	472	478	anti-parallel
Strand 6	E	514	521	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	440	442	first strand
Strand 2	E	381	389	parallel
Strand 3	E	329	337	anti-parallel
Strand 4	E	344	352	anti-parallel
Strand 5	E	364	369	anti-parallel
Strand 6	E	298	303	anti-parallel
Strand 7	E	286	292	anti-parallel
Strand 8	E	381	389	anti-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	F	448	451	first strand
Strand 2	F	429	437	anti-parallel
Strand 3	F	248	252	anti-parallel
Strand 4	F	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	448	451	first strand
Strand 2	F	429	437	anti-parallel
Strand 3	F	496	500	anti-parallel
Strand 4	F	485	492	anti-parallel
Strand 5	F	472	478	anti-parallel
Strand 6	F	514	521	anti-parallel

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There are 7 strands in U sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	286	292	first strand
Strand 2	F	298	303	anti-parallel
Strand 3	F	364	369	anti-parallel
Strand 4	F	344	352	anti-parallel
Strand 5	F	329	337	anti-parallel
Strand 6	F	381	389	anti-parallel
Strand 7	F	286	292	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	G	448	451	first strand
Strand 2	G	429	437	anti-parallel
Strand 3	G	248	252	anti-parallel
Strand 4	G	505	506	anti-parallel

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There are 6 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	448	451	first strand
Strand 2	G	429	437	anti-parallel
Strand 3	G	496	500	anti-parallel
Strand 4	G	485	492	anti-parallel
Strand 5	G	472	478	anti-parallel
Strand 6	G	514	521	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	448	451	first strand
Strand 2	H	429	437	anti-parallel
Strand 3	H	248	252	anti-parallel
Strand 4	H	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	448	451	first strand
Strand 2	H	429	437	anti-parallel
Strand 3	H	496	500	anti-parallel
Strand 4	H	485	492	anti-parallel
Strand 5	H	472	478	anti-parallel
Strand 6	H	514	521	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	449	451	first strand
Strand 2	I	429	436	anti-parallel
Strand 3	I	248	252	anti-parallel
Strand 4	I	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	449	451	first strand
Strand 2	I	429	436	anti-parallel
Strand 3	I	496	500	anti-parallel
Strand 4	I	485	492	anti-parallel
Strand 5	I	472	478	anti-parallel
Strand 6	I	514	521	anti-parallel

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There are 7 strands in AB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	286	292	first strand
Strand 2	I	298	303	anti-parallel
Strand 3	I	364	369	anti-parallel
Strand 4	I	346	352	anti-parallel
Strand 5	I	327	336	anti-parallel
Strand 6	I	380	401	anti-parallel
Strand 7	I	286	292	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	450	451	first strand
Strand 2	J	429	435	anti-parallel
Strand 3	J	248	252	anti-parallel
Strand 4	J	505	506	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	450	451	first strand
Strand 2	J	429	435	anti-parallel
Strand 3	J	496	500	anti-parallel
Strand 4	J	485	492	anti-parallel
Strand 5	J	472	478	anti-parallel
Strand 6	J	514	521	anti-parallel

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There are 7 strands in AE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	286	292	first strand
Strand 2	J	299	303	anti-parallel
Strand 3	J	364	368	anti-parallel
Strand 4	J	346	352	anti-parallel
Strand 5	J	327	336	anti-parallel
Strand 6	J	381	401	anti-parallel
Strand 7	J	286	292	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: 3SKB

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