Analysis of interatomic Contacts of Structural Units in PDB entry:
2Y25

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 2Y25 entry

There are 4 chains in PDB entry 2Y25 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 1352	PRO 1666
B	ASP 1353	PRO 1666
C	ILE 1352	PRO 1666
D	ASP 1353	PRO 1666

There are 15 helices in PDB entry 2Y25. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	1445	1461	Right-handed alpha
Helix 2	2	A	1522	1526	Right-handed 310
Helix 3	3	A	1547	1568	Right-handed alpha
Helix 4	4	B	1447	1462	Right-handed alpha
Helix 5	5	B	1522	1526	Right-handed 310
Helix 6	6	B	1547	1571	Right-handed alpha
Helix 7	7	B	1637	1641	Right-handed 310
Helix 8	8	C	1445	1461	Right-handed alpha
Helix 9	9	C	1522	1526	Right-handed 310
Helix 10	10	C	1547	1568	Right-handed alpha
Helix 11	11	C	1637	1641	Right-handed 310
Helix 12	12	D	1447	1462	Right-handed alpha
Helix 13	13	D	1522	1526	Right-handed 310
Helix 14	14	D	1547	1571	Right-handed alpha
Helix 15	15	D	1637	1641	Right-handed 310

There are 28 sheets in PDB entry 2Y25. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, BA, BB, BC, BD, BE, BF, BG, CA, CB, CC, CD, CE, CF, CG, CH, A, DB, C, DD, DE, DF, G,

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	A	1359	1369	first strand
Strand 2	A	1373	1381	anti-parallel
Strand 3	A	1411	1415	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	A	1396	1398	first strand
Strand 2	A	1388	1393	anti-parallel
Strand 3	A	1426	1431	anti-parallel
Strand 4	A	1436	1441	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	A	1467	1470	first strand
Strand 2	A	1474	1480	anti-parallel
Strand 3	A	1513	1519	anti-parallel
Strand 4	A	1505	1509	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	A	1489	1494	first strand
Strand 2	A	1527	1534	anti-parallel
Strand 3	A	1539	1546	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	A	1573	1576	first strand
Strand 2	A	1592	1597	anti-parallel
Strand 3	A	1628	1633	anti-parallel
Strand 4	A	1619	1621	anti-parallel

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There are 10 strands in AF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1612	1613	first strand
Strand 2	A	1603	1608	anti-parallel
Strand 3	A	1642	1650	anti-parallel
Strand 4	A	1653	1664	anti-parallel
Strand 5	A	1581	1585	parallel
Strand 6	B	1581	1585	anti-parallel
Strand 7	B	1653	1664	parallel
Strand 8	B	1642	1650	anti-parallel
Strand 9	B	1603	1608	anti-parallel
Strand 10	B	1611	1612	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1359	1360	first strand
Strand 2	B	1380	1381	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1365	1369	first strand
Strand 2	B	1373	1377	anti-parallel
Strand 3	B	1413	1415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1396	1397	first strand
Strand 2	B	1388	1393	anti-parallel
Strand 3	B	1424	1432	anti-parallel
Strand 4	B	1435	1443	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1467	1470	first strand
Strand 2	B	1474	1480	anti-parallel
Strand 3	B	1513	1519	anti-parallel
Strand 4	B	1507	1510	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1497	1498	first strand
Strand 2	B	1490	1494	anti-parallel
Strand 3	B	1527	1534	anti-parallel
Strand 4	B	1539	1546	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1573	1576	first strand
Strand 2	B	1594	1597	anti-parallel
Strand 3	B	1628	1630	anti-parallel
Strand 4	B	1622	1624	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1590	1591	first strand
Strand 2	B	1632	1633	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1359	1369	first strand
Strand 2	C	1373	1381	anti-parallel
Strand 3	C	1411	1415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1396	1398	first strand
Strand 2	C	1388	1393	anti-parallel
Strand 3	C	1426	1431	anti-parallel
Strand 4	C	1436	1437	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1396	1398	first strand
Strand 2	C	1388	1393	anti-parallel
Strand 3	C	1426	1431	anti-parallel
Strand 4	C	1440	1441	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1436	1437	first strand
Strand 2	C	1426	1431	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1467	1470	first strand
Strand 2	C	1474	1480	anti-parallel
Strand 3	C	1513	1519	anti-parallel
Strand 4	C	1505	1509	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1489	1494	first strand
Strand 2	C	1527	1534	anti-parallel
Strand 3	C	1539	1546	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1573	1576	first strand
Strand 2	C	1592	1597	anti-parallel
Strand 3	C	1628	1633	anti-parallel
Strand 4	C	1619	1624	anti-parallel

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There are 10 strands in CH sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1612	1613	first strand
Strand 2	C	1603	1608	anti-parallel
Strand 3	C	1642	1650	anti-parallel
Strand 4	C	1653	1664	anti-parallel
Strand 5	C	1581	1585	parallel
Strand 6	D	1581	1585	anti-parallel
Strand 7	D	1653	1664	parallel
Strand 8	D	1642	1650	anti-parallel
Strand 9	D	1603	1608	anti-parallel
Strand 10	D	1611	1612	anti-parallel

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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	D	1359	1360	first strand
Strand 2	D	1380	1381	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1365	1369	first strand
Strand 2	D	1373	1377	anti-parallel
Strand 3	D	1413	1415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1396	1397	first strand
Strand 2	D	1388	1393	anti-parallel
Strand 3	D	1424	1432	anti-parallel
Strand 4	D	1435	1443	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1467	1470	first strand
Strand 2	D	1474	1480	anti-parallel
Strand 3	D	1513	1519	anti-parallel
Strand 4	D	1507	1510	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1497	1498	first strand
Strand 2	D	1490	1494	anti-parallel
Strand 3	D	1527	1534	anti-parallel
Strand 4	D	1539	1546	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1573	1576	first strand
Strand 2	D	1594	1597	anti-parallel
Strand 3	D	1628	1630	anti-parallel
Strand 4	D	1622	1624	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	D	1590	1591	first strand
Strand 2	D	1632	1633	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: 2Y25

Analysis of interatomic Contacts of Structural Units in PDB entry:
2Y25