Analysis of interatomic Contacts of Structural Units in PDB entry:
7YNB

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 7YNB entry

There are 3 chains in PDB entry 7YNB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	ALA 1601
B	U -15	C 23
C	U -3	U 25

There are 32 helices in PDB entry 7YNB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	57	74	Right-handed alpha
Helix 2	AA2	A	123	130	Right-handed alpha
Helix 3	AA3	A	213	225	Right-handed alpha
Helix 4	AA4	A	261	276	Right-handed alpha
Helix 5	AA5	A	281	290	Right-handed alpha
Helix 6	AA6	A	291	295	Right-handed 310
Helix 7	AA7	A	298	302	Right-handed 310
Helix 8	AA8	A	328	336	Right-handed alpha
Helix 9	AA9	A	344	365	Right-handed alpha
Helix 10	AB1	A	443	459	Right-handed alpha
Helix 11	AB2	A	542	553	Right-handed alpha
Helix 12	AB3	A	562	566	Right-handed 310
Helix 13	AB4	A	587	594	Right-handed alpha
Helix 14	AB5	A	599	607	Right-handed alpha
Helix 15	AB6	A	642	649	Right-handed alpha
Helix 16	AB7	A	675	689	Right-handed alpha
Helix 17	AB8	A	709	714	Right-handed alpha
Helix 18	AB9	A	780	784	Right-handed alpha
Helix 19	AC1	A	787	801	Right-handed alpha
Helix 20	AC2	A	809	813	Right-handed 310
Helix 21	AC3	A	946	962	Right-handed alpha
Helix 22	AC4	A	1101	1109	Right-handed alpha
Helix 23	AC5	A	1231	1247	Right-handed alpha
Helix 24	AC6	A	1259	1264	Right-handed alpha
Helix 25	AC7	A	1300	1305	Right-handed 310
Helix 26	AC8	A	1420	1427	Right-handed alpha
Helix 27	AC9	A	1466	1476	Right-handed alpha
Helix 28	AD1	A	1515	1517	Right-handed 310
Helix 29	AD2	A	1518	1534	Right-handed alpha
Helix 30	AD3	A	1538	1548	Right-handed alpha
Helix 31	AD4	A	1575	1580	Right-handed alpha
Helix 32	AD5	A	1588	1595	Right-handed alpha

There are 18 sheets in PDB entry 7YNB. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	148	150	first strand
Strand 2	A	199	207	anti-parallel
Strand 3	A	2	11	anti-parallel
Strand 4	A	233	237	anti-parallel

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There are 3 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	15	17	first strand
Strand 2	A	187	192	anti-parallel
Strand 3	A	168	173	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	41	44	first strand
Strand 2	A	52	55	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	483	484	first strand
Strand 2	A	527	536	anti-parallel
Strand 3	A	402	412	anti-parallel
Strand 4	A	570	581	anti-parallel
Strand 5	A	611	612	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	497	504	first strand
Strand 2	A	511	521	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	723	724	first strand
Strand 2	A	771	779	anti-parallel
Strand 3	A	625	634	anti-parallel
Strand 4	A	817	823	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	659	663	first strand
Strand 2	A	668	674	anti-parallel
Strand 3	A	728	729	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	739	744	first strand
Strand 2	A	751	759	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	861	862	first strand
Strand 2	A	1558	1559	parallel

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There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	944	945	first strand
Strand 2	A	1362	1364	anti-parallel
Strand 3	A	1453	1455	anti-parallel
Strand 4	A	891	901	anti-parallel
Strand 5	A	1457	1463	anti-parallel
Strand 6	A	1357	1358	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	944	945	first strand
Strand 2	A	1362	1364	anti-parallel
Strand 3	A	1453	1455	anti-parallel
Strand 4	A	891	901	anti-parallel
Strand 5	A	1496	1500	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	976	978	first strand
Strand 2	A	1294	1296	anti-parallel

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There are 11 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1001	1012	first strand
Strand 2	A	1120	1130	parallel
Strand 3	A	1035	1047	anti-parallel
Strand 4	A	1142	1149	anti-parallel
Strand 5	A	1215	1229	anti-parallel
Strand 6	A	1001	1012	anti-parallel
Strand 7	A	991	995	anti-parallel
Strand 8	A	1274	1280	anti-parallel
Strand 9	A	1283	1288	anti-parallel
Strand 10	A	1215	1229	parallel
Strand 11	A	1215	1229	first strand

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1070	1071	first strand
Strand 2	A	1117	1118	anti-parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1081	1086	first strand
Strand 2	A	1093	1098	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1187	1188	first strand
Strand 2	A	1197	1198	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1200	1202	first strand
Strand 2	A	1208	1210	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1385	1387	first strand
Strand 2	A	1444	1446	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: 7YNB

Analysis of interatomic Contacts of Structural Units in PDB entry:
7YNB