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

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 2PNL entry

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

Chain ID	Initial residue	Terminal residue
A	GLY 514	ALA 716
B	GLY 514	ALA 716
C	GLY 514	ALA 716
D	GLY 514	ALA 716
E	GLY 514	ALA 716
F	GLY 514	ALA 716
G	GLY 514	ALA 716
H	GLY 514	ALA 716
I	GLY 514	ALA 716
J	GLY 514	ALA 716

There are 60 helices in PDB entry 2PNL. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	517	526	Right-handed alpha
Helix 2	2	A	568	572	Right-handed 310
Helix 3	3	A	573	577	Right-handed 310
Helix 4	4	A	634	644	Right-handed alpha
Helix 5	5	A	670	681	Right-handed alpha
Helix 6	6	A	698	709	Right-handed alpha
Helix 7	7	B	517	526	Right-handed alpha
Helix 8	8	B	568	572	Right-handed 310
Helix 9	9	B	573	577	Right-handed 310
Helix 10	10	B	634	644	Right-handed alpha
Helix 11	11	B	670	680	Right-handed alpha
Helix 12	12	B	698	709	Right-handed alpha
Helix 13	13	C	517	526	Right-handed alpha
Helix 14	14	C	568	572	Right-handed 310
Helix 15	15	C	573	577	Right-handed 310
Helix 16	16	C	631	633	Right-handed 310
Helix 17	17	C	634	644	Right-handed alpha
Helix 18	18	C	670	681	Right-handed alpha
Helix 19	19	C	698	709	Right-handed alpha
Helix 20	20	D	517	526	Right-handed alpha
Helix 21	21	D	568	572	Right-handed 310
Helix 22	22	D	573	577	Right-handed 310
Helix 23	23	D	634	644	Right-handed alpha
Helix 24	24	D	670	681	Right-handed alpha
Helix 25	25	D	698	709	Right-handed alpha
Helix 26	26	E	517	526	Right-handed alpha
Helix 27	27	E	568	572	Right-handed 310
Helix 28	28	E	573	577	Right-handed 310
Helix 29	29	E	634	644	Right-handed alpha
Helix 30	30	E	670	680	Right-handed alpha
Helix 31	31	E	698	709	Right-handed alpha
Helix 32	32	F	517	526	Right-handed alpha
Helix 33	33	F	568	572	Right-handed 310
Helix 34	34	F	634	644	Right-handed alpha
Helix 35	35	F	670	680	Right-handed alpha
Helix 36	36	F	698	709	Right-handed alpha
Helix 37	37	G	517	526	Right-handed alpha
Helix 38	38	G	568	572	Right-handed 310
Helix 39	39	G	573	577	Right-handed 310
Helix 40	40	G	634	642	Right-handed alpha
Helix 41	41	G	670	680	Right-handed alpha
Helix 42	42	G	698	709	Right-handed alpha
Helix 43	43	H	517	526	Right-handed alpha
Helix 44	44	H	568	572	Right-handed 310
Helix 45	45	H	573	577	Right-handed 310
Helix 46	46	H	634	644	Right-handed alpha
Helix 47	47	H	670	680	Right-handed alpha
Helix 48	48	H	698	709	Right-handed alpha
Helix 49	49	I	517	526	Right-handed alpha
Helix 50	50	I	568	572	Right-handed 310
Helix 51	51	I	573	577	Right-handed 310
Helix 52	52	I	634	644	Right-handed alpha
Helix 53	53	I	670	681	Right-handed alpha
Helix 54	54	I	698	709	Right-handed alpha
Helix 55	55	J	517	526	Right-handed alpha
Helix 56	56	J	568	572	Right-handed 310
Helix 57	57	J	573	577	Right-handed 310
Helix 58	58	J	634	644	Right-handed alpha
Helix 59	59	J	670	681	Right-handed alpha
Helix 60	60	J	698	709	Right-handed alpha

There are 40 sheets in PDB entry 2PNL. 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, AG, AH, AI, AJ, AK, AL, AM, AN,

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	515	516	first strand
Strand 2	A	555	565	parallel
Strand 3	A	603	613	anti-parallel
Strand 4	A	541	547	first strand

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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	529	534	first strand
Strand 2	A	619	623	anti-parallel
Strand 3	A	603	613	anti-parallel
Strand 4	A	555	565	anti-parallel
Strand 5	A	587	590	first strand
Strand 6	A	579	581	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	653	654	first strand
Strand 2	A	685	687	parallel
Strand 3	A	694	695	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	A	657	658	first strand
Strand 2	A	665	666	anti-parallel

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There are 5 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	515	516	first strand
Strand 2	B	555	565	parallel
Strand 3	B	603	613	anti-parallel
Strand 4	B	587	590	parallel
Strand 5	B	579	581	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	529	534	first strand
Strand 2	B	619	623	anti-parallel
Strand 3	B	603	613	anti-parallel
Strand 4	B	555	565	anti-parallel
Strand 5	B	541	548	anti-parallel
Strand 6	A	713	715	anti-parallel
Strand 7	B	629	630	parallel

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There are 3 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	653	654	first strand
Strand 2	B	685	687	parallel
Strand 3	B	694	695	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	B	657	658	first strand
Strand 2	B	665	666	anti-parallel

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There are 5 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	529	534	first strand
Strand 2	C	619	623	anti-parallel
Strand 3	C	603	613	anti-parallel
Strand 4	C	587	590	parallel
Strand 5	C	579	581	anti-parallel

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There are 7 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	529	534	first strand
Strand 2	C	619	623	anti-parallel
Strand 3	C	603	613	anti-parallel
Strand 4	C	557	565	anti-parallel
Strand 5	C	541	548	anti-parallel
Strand 6	B	713	715	anti-parallel
Strand 7	C	629	630	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	653	654	first strand
Strand 2	C	685	687	parallel
Strand 3	C	694	695	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	C	657	658	first strand
Strand 2	C	665	666	anti-parallel

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There are 5 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	529	534	first strand
Strand 2	D	619	623	anti-parallel
Strand 3	D	603	613	anti-parallel
Strand 4	D	587	590	parallel
Strand 5	D	579	581	anti-parallel

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There are 7 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	529	534	first strand
Strand 2	D	619	623	anti-parallel
Strand 3	D	603	613	anti-parallel
Strand 4	D	557	565	anti-parallel
Strand 5	D	541	548	anti-parallel
Strand 6	C	713	715	anti-parallel
Strand 7	D	629	630	parallel

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There are 3 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	653	654	first strand
Strand 2	D	685	687	parallel
Strand 3	D	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	657	658	first strand
Strand 2	D	665	666	anti-parallel

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There are 5 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	529	534	first strand
Strand 2	E	619	623	anti-parallel
Strand 3	E	604	613	anti-parallel
Strand 4	E	588	590	parallel
Strand 5	E	579	581	anti-parallel

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There are 7 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	529	534	first strand
Strand 2	E	619	623	anti-parallel
Strand 3	E	604	613	anti-parallel
Strand 4	E	557	565	anti-parallel
Strand 5	E	541	548	anti-parallel
Strand 6	D	713	715	anti-parallel
Strand 7	E	629	630	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	E	653	654	first strand
Strand 2	E	685	687	parallel
Strand 3	E	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	657	658	first strand
Strand 2	E	665	666	anti-parallel

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There are 4 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	515	516	first strand
Strand 2	F	555	565	parallel
Strand 3	F	603	613	anti-parallel
Strand 4	F	541	547	first strand

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	529	534	first strand
Strand 2	F	619	623	anti-parallel
Strand 3	F	603	613	anti-parallel
Strand 4	F	555	565	anti-parallel
Strand 5	F	587	590	first strand
Strand 6	F	579	581	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	653	654	first strand
Strand 2	F	685	687	parallel
Strand 3	F	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	657	658	first strand
Strand 2	F	665	666	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	F	713	715	first strand
Strand 2	G	541	548	anti-parallel
Strand 3	G	557	565	anti-parallel
Strand 4	G	603	613	anti-parallel
Strand 5	G	619	623	anti-parallel
Strand 6	G	529	534	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	713	715	first strand
Strand 2	G	541	548	anti-parallel
Strand 3	G	557	565	anti-parallel
Strand 4	G	603	613	anti-parallel
Strand 5	G	587	590	parallel
Strand 6	G	579	581	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	653	654	first strand
Strand 2	G	685	687	parallel
Strand 3	G	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	657	658	first strand
Strand 2	G	665	666	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	529	534	first strand
Strand 2	H	619	623	anti-parallel
Strand 3	H	604	613	anti-parallel
Strand 4	H	588	590	parallel
Strand 5	H	579	581	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	529	534	first strand
Strand 2	H	619	623	anti-parallel
Strand 3	H	604	613	anti-parallel
Strand 4	H	557	565	anti-parallel
Strand 5	H	541	548	anti-parallel
Strand 6	G	713	715	anti-parallel
Strand 7	H	629	630	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	653	654	first strand
Strand 2	H	685	687	parallel
Strand 3	H	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	657	658	first strand
Strand 2	H	665	666	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	515	516	first strand
Strand 2	I	555	565	parallel
Strand 3	I	603	613	anti-parallel
Strand 4	I	587	590	parallel
Strand 5	I	579	581	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	529	534	first strand
Strand 2	I	619	623	anti-parallel
Strand 3	I	603	613	anti-parallel
Strand 4	I	555	565	anti-parallel
Strand 5	I	541	548	anti-parallel
Strand 6	H	713	715	anti-parallel
Strand 7	I	629	630	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	653	654	first strand
Strand 2	I	685	687	parallel
Strand 3	I	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	657	658	first strand
Strand 2	I	665	666	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	529	534	first strand
Strand 2	J	619	623	anti-parallel
Strand 3	J	603	613	anti-parallel
Strand 4	J	587	590	parallel
Strand 5	J	579	581	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	529	534	first strand
Strand 2	J	619	623	anti-parallel
Strand 3	J	603	613	anti-parallel
Strand 4	J	557	565	anti-parallel
Strand 5	J	541	548	anti-parallel
Strand 6	I	713	715	anti-parallel
Strand 7	J	629	630	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	653	654	first strand
Strand 2	J	685	687	parallel
Strand 3	J	694	695	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	657	658	first strand
Strand 2	J	665	666	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: 2PNL

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