Analysis of interatomic Contacts of Structural Units in PDB entry:
1YIF

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 1YIF entry

There are 4 chains in PDB entry 1YIF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 2	LYS 533
B	LYS 2	LYS 533
C	LYS 2	LYS 533
D	LYS 2	LYS 533

There are 4 helices in PDB entry 1YIF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	491	494	Right-handed 310
Helix 2	2	B	491	494	Right-handed 310
Helix 3	3	C	491	494	Right-handed 310
Helix 4	4	D	491	494	Right-handed 310

There are 51 sheets in PDB entry 1YIF. 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, AO, AP, AQ, AR, AS, AT, AU, AV, AW, AX, AY,

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	3	4	first strand
Strand 2	A	312	313	anti-parallel

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There are 4 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	16	20	first strand
Strand 2	A	23	28	anti-parallel
Strand 3	A	38	42	anti-parallel
Strand 4	A	48	52	anti-parallel

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There are 2 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	34	first strand
Strand 2	A	344	345	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	A	76	80	first strand
Strand 2	A	83	91	anti-parallel
Strand 3	A	101	108	anti-parallel
Strand 4	A	119	120	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	129	132	first strand
Strand 2	A	138	145	anti-parallel
Strand 3	A	154	163	anti-parallel
Strand 4	A	168	169	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	A	129	132	first strand
Strand 2	A	138	145	anti-parallel
Strand 3	A	154	163	anti-parallel
Strand 4	A	174	177	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	A	186	193	first strand
Strand 2	A	196	203	anti-parallel
Strand 3	A	211	217	anti-parallel
Strand 4	A	225	226	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	A	186	193	first strand
Strand 2	A	196	203	anti-parallel
Strand 3	A	211	217	anti-parallel
Strand 4	A	233	234	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	A	244	253	first strand
Strand 2	A	259	266	anti-parallel
Strand 3	A	288	297	anti-parallel
Strand 4	A	300	303	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	330	331	first strand
Strand 2	A	522	532	anti-parallel
Strand 3	A	363	366	anti-parallel
Strand 4	A	354	355	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	330	331	first strand
Strand 2	A	522	532	anti-parallel
Strand 3	A	388	396	anti-parallel
Strand 4	A	459	466	anti-parallel
Strand 5	A	469	475	anti-parallel
Strand 6	A	482	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	378	383	first strand
Strand 2	A	508	515	anti-parallel
Strand 3	A	404	413	anti-parallel
Strand 4	A	416	425	anti-parallel
Strand 5	A	429	438	anti-parallel
Strand 6	A	441	443	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	A	378	383	first strand
Strand 2	A	508	515	anti-parallel
Strand 3	A	404	413	anti-parallel
Strand 4	A	416	425	anti-parallel
Strand 5	A	429	438	anti-parallel
Strand 6	A	450	451	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	3	4	first strand
Strand 2	B	312	313	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	16	20	first strand
Strand 2	B	23	28	anti-parallel
Strand 3	B	38	42	anti-parallel
Strand 4	B	49	52	anti-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	B	33	34	first strand
Strand 2	B	344	345	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	76	80	first strand
Strand 2	B	83	91	anti-parallel
Strand 3	B	101	108	anti-parallel
Strand 4	B	119	120	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	129	132	first strand
Strand 2	B	138	145	anti-parallel
Strand 3	B	154	163	anti-parallel
Strand 4	B	168	169	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	B	129	132	first strand
Strand 2	B	138	145	anti-parallel
Strand 3	B	154	163	anti-parallel
Strand 4	B	174	177	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	B	186	193	first strand
Strand 2	B	196	203	anti-parallel
Strand 3	B	211	217	anti-parallel
Strand 4	B	225	226	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	B	186	193	first strand
Strand 2	B	196	203	anti-parallel
Strand 3	B	211	217	anti-parallel
Strand 4	B	233	234	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	B	244	253	first strand
Strand 2	B	259	266	anti-parallel
Strand 3	B	288	297	anti-parallel
Strand 4	B	300	303	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	B	330	331	first strand
Strand 2	B	522	532	anti-parallel
Strand 3	B	363	366	anti-parallel
Strand 4	B	354	355	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	330	331	first strand
Strand 2	B	522	532	anti-parallel
Strand 3	B	388	396	anti-parallel
Strand 4	B	459	466	anti-parallel
Strand 5	B	469	475	anti-parallel
Strand 6	B	482	489	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	B	378	383	first strand
Strand 2	B	508	515	anti-parallel
Strand 3	B	404	413	anti-parallel
Strand 4	B	416	425	anti-parallel
Strand 5	B	429	438	anti-parallel
Strand 6	B	441	443	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	B	378	383	first strand
Strand 2	B	508	515	anti-parallel
Strand 3	B	404	413	anti-parallel
Strand 4	B	416	425	anti-parallel
Strand 5	B	429	438	anti-parallel
Strand 6	B	450	451	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	3	4	first strand
Strand 2	C	312	313	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	16	20	first strand
Strand 2	C	23	28	anti-parallel
Strand 3	C	38	42	anti-parallel
Strand 4	C	49	52	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	33	34	first strand
Strand 2	C	343	345	anti-parallel
Strand 3	C	378	383	anti-parallel
Strand 4	C	508	515	anti-parallel
Strand 5	C	404	413	anti-parallel
Strand 6	C	416	425	anti-parallel
Strand 7	C	429	438	anti-parallel
Strand 8	C	441	443	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	33	34	first strand
Strand 2	C	343	345	anti-parallel
Strand 3	C	378	383	anti-parallel
Strand 4	C	508	515	anti-parallel
Strand 5	C	404	413	anti-parallel
Strand 6	C	416	425	anti-parallel
Strand 7	C	429	438	anti-parallel
Strand 8	C	450	451	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	76	80	first strand
Strand 2	C	83	91	anti-parallel
Strand 3	C	101	108	anti-parallel
Strand 4	C	119	120	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	129	132	first strand
Strand 2	C	138	145	anti-parallel
Strand 3	C	154	163	anti-parallel
Strand 4	C	168	169	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	129	132	first strand
Strand 2	C	138	145	anti-parallel
Strand 3	C	154	163	anti-parallel
Strand 4	C	174	177	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	186	193	first strand
Strand 2	C	196	203	anti-parallel
Strand 3	C	211	217	anti-parallel
Strand 4	C	225	226	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	186	193	first strand
Strand 2	C	196	203	anti-parallel
Strand 3	C	211	217	anti-parallel
Strand 4	C	233	234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	244	253	first strand
Strand 2	C	259	266	anti-parallel
Strand 3	C	288	297	anti-parallel
Strand 4	C	300	303	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	330	331	first strand
Strand 2	C	522	532	anti-parallel
Strand 3	C	388	396	anti-parallel
Strand 4	C	459	466	anti-parallel
Strand 5	C	469	475	anti-parallel
Strand 6	C	482	483	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	C	354	355	first strand
Strand 2	C	363	366	anti-parallel
Strand 3	C	522	532	anti-parallel
Strand 4	C	388	396	anti-parallel
Strand 5	C	459	466	anti-parallel
Strand 6	C	469	475	anti-parallel
Strand 7	C	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	4	first strand
Strand 2	D	312	313	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	16	20	first strand
Strand 2	D	23	28	anti-parallel
Strand 3	D	38	42	anti-parallel
Strand 4	D	49	52	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	33	34	first strand
Strand 2	D	344	345	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	76	80	first strand
Strand 2	D	83	91	anti-parallel
Strand 3	D	101	108	anti-parallel
Strand 4	D	119	120	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	129	132	first strand
Strand 2	D	138	145	anti-parallel
Strand 3	D	154	163	anti-parallel
Strand 4	D	168	169	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	129	132	first strand
Strand 2	D	138	145	anti-parallel
Strand 3	D	154	163	anti-parallel
Strand 4	D	174	177	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	186	193	first strand
Strand 2	D	196	203	anti-parallel
Strand 3	D	211	217	anti-parallel
Strand 4	D	225	226	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	186	193	first strand
Strand 2	D	196	203	anti-parallel
Strand 3	D	211	217	anti-parallel
Strand 4	D	233	234	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	244	253	first strand
Strand 2	D	259	266	anti-parallel
Strand 3	D	288	297	anti-parallel
Strand 4	D	300	303	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	330	331	first strand
Strand 2	D	522	532	anti-parallel
Strand 3	D	388	396	anti-parallel
Strand 4	D	459	466	anti-parallel
Strand 5	D	469	475	anti-parallel
Strand 6	D	482	483	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	354	355	first strand
Strand 2	D	363	366	anti-parallel
Strand 3	D	522	532	anti-parallel
Strand 4	D	388	396	anti-parallel
Strand 5	D	459	466	anti-parallel
Strand 6	D	469	475	anti-parallel
Strand 7	D	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	378	383	first strand
Strand 2	D	508	515	anti-parallel
Strand 3	D	404	413	anti-parallel
Strand 4	D	416	425	anti-parallel
Strand 5	D	429	438	anti-parallel
Strand 6	D	441	443	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	378	383	first strand
Strand 2	D	508	515	anti-parallel
Strand 3	D	404	413	anti-parallel
Strand 4	D	416	425	anti-parallel
Strand 5	D	429	438	anti-parallel
Strand 6	D	450	451	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: 1YIF

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YIF