Contacts of the helix formed by residues 1551 - 1576 (chain A) in PDB entry 5FZT
Residue contacts within the protein 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). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with THR1551 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1549A ASP* 2.7 31.2 + - - +
1550A PHE* 1.3 78.4 - - - +
1552A GLU* 1.3 65.8 + - - +
1553A GLU* 3.6 12.2 + - - +
1554A ASN* 3.2 21.7 + - - +
1555A ARG* 2.9 25.1 + - - +
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Residues in contact with GLU1552 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1550A PHE 4.0 0.2 + - - -
1551A THR* 1.3 73.9 - - - +
1553A GLU* 1.3 57.1 + - - +
1555A ARG* 3.7 13.2 - - + +
1556A ALA* 2.9 29.5 + - + +
1559A ARG* 5.1 5.5 + - - +
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Residues in contact with GLU1553 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1551A THR* 3.0 10.4 + - - +
1552A GLU* 1.3 77.0 - - - +
1554A ASN* 1.3 71.3 + - - +
1556A ALA* 3.5 6.1 + - + +
1557A GLN* 3.1 55.4 + - + +
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Residues in contact with ASN1554 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1542A THR 5.2 0.5 - - - +
1545A ALA* 3.5 28.4 + - - +
1546A LEU* 3.6 18.4 - - + +
1549A ASP* 3.1 46.8 + - - +
1551A THR* 3.2 7.9 + - - +
1553A GLU* 1.3 88.5 - - - +
1555A ARG* 1.3 59.9 + - - +
1557A GLN* 3.8 12.6 + - - +
1558A CYS* 2.9 31.5 + - - +
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Residues in contact with ARG1555 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1481A LEU 5.3 3.6 - - - +
1483A GLU 4.4 1.6 + - - +
1484A PRO* 2.5 32.4 + - - +
1485A GLY* 3.2 5.5 + - - -
1486A CYS* 2.8 41.0 + - - +
1546A LEU* 3.5 14.3 - - + +
1550A PHE* 3.1 45.1 + - - +
1551A THR 2.9 19.8 + - - +
1552A GLU* 3.7 13.5 - - - +
1554A ASN* 1.3 76.4 - - - +
1556A ALA* 1.3 56.9 + - - +
1558A CYS* 3.7 3.5 - - - +
1559A ARG* 2.8 51.7 + - - +
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Residues in contact with ALA1556 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1552A GLU* 2.9 20.4 + - + +
1553A GLU* 3.8 7.4 - - - +
1554A ASN 3.3 0.2 - - - -
1555A ARG* 1.3 76.3 - - - +
1557A GLN* 1.3 53.4 + - + +
1559A ARG* 3.3 20.0 + - - +
1560A ALA* 2.7 34.5 + - - +
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Residues in contact with GLN1557 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1542A THR* 4.3 13.4 - - + +
1545A ALA* 6.1 0.7 - - - +
1553A GLU* 3.1 44.5 + - + +
1554A ASN* 3.8 12.9 + - - +
1556A ALA* 1.3 75.0 - - + +
1558A CYS* 1.3 65.7 + - - +
1560A ALA* 3.1 8.0 + - - +
1561A ALA* 2.9 24.8 + - - +
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Residues in contact with CYS1558 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1481A LEU* 4.4 21.5 - - - +
1539A LEU* 3.7 5.3 - - - +
1542A THR* 3.3 28.4 + - - +
1543A ILE* 3.9 23.3 - - - -
1546A LEU* 4.1 23.3 - - + -
1554A ASN 2.9 18.3 + - - +
1555A ARG* 3.9 2.9 - - - +
1557A GLN* 1.3 75.5 - - - +
1559A ARG* 1.3 64.1 + - - +
1561A ALA* 3.3 11.4 + - - +
1562A THR* 3.5 12.5 + - - +
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Residues in contact with ARG1559 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1481A LEU 5.1 2.5 + - - +
1482A GLY* 3.1 44.3 + - - -
1483A GLU 4.9 0.2 + - - -
1484A PRO* 4.1 18.9 - - - +
1552A GLU* 5.1 5.1 + - - +
1555A ARG* 2.8 46.7 + - - +
1556A ALA* 3.4 29.3 - - - +
1558A CYS* 1.3 74.8 - - - +
1560A ALA* 1.3 59.8 + - - +
1562A THR* 2.8 31.7 + - - +
1563A ALA* 4.0 1.9 + - - +
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Residues in contact with ALA1560 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1556A ALA 2.7 20.5 + - - +
1557A GLN* 3.1 8.9 + - - +
1559A ARG* 1.3 73.3 - - - +
1561A ALA* 1.3 61.6 + - - +
1563A ALA* 3.2 18.1 + - - +
1564A PRO* 3.3 10.0 - - - +
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Residues in contact with ALA1561 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1535A SER 4.5 4.2 - - - +
1538A ASN* 4.5 3.9 - - + +
1539A LEU* 3.7 26.1 - - + +
1542A THR* 3.7 27.1 - - + +
1557A GLN 2.9 15.5 + - - +
1558A CYS 3.6 6.7 - - - +
1559A ARG 3.2 0.6 - - - -
1560A ALA* 1.3 76.3 - - - +
1562A THR* 1.3 60.5 + - - +
1563A ALA 3.3 0.2 - - - -
1564A PRO* 3.5 15.3 - - - +
1565A LEU* 4.1 4.9 + - - +
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Residues in contact with THR1562 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1478A CYS* 3.7 41.7 + - + +
1481A LEU* 4.3 12.6 - - + -
1482A GLY 5.6 0.4 - - - +
1539A LEU* 3.8 17.0 - - + -
1558A CYS 3.5 14.8 - - - +
1559A ARG* 2.8 20.7 + - + +
1560A ALA 3.2 0.2 - - - -
1561A ALA* 1.3 76.5 - - - +
1563A ALA* 1.3 66.3 + - - +
1565A LEU* 3.1 5.4 + - - +
1566A LEU* 3.0 31.6 + - - +
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Residues in contact with ALA1563 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1559A ARG 4.0 1.8 + - - +
1560A ALA* 3.2 10.2 + - - +
1562A THR* 1.3 81.1 + - - +
1564A PRO* 1.3 72.2 - - + +
1566A LEU* 3.3 8.2 + - - +
1567A GLU* 2.9 24.9 + - - +
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Residues in contact with PRO1564 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1535A SER* 3.9 17.8 + - - -
1560A ALA 3.3 14.8 - - - +
1561A ALA* 3.5 12.1 - - - +
1563A ALA* 1.3 92.0 - - + +
1565A LEU* 1.3 55.7 + - - +
1567A GLU* 3.4 7.0 + - + +
1568A ALA* 3.0 27.9 + - - +
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Residues in contact with LEU1565 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1474A ILE* 3.7 24.9 - - + -
1478A CYS* 4.2 5.2 - - - -
1498A VAL* 3.8 25.1 - - + -
1502A THR* 4.1 8.5 - - + -
1532A VAL* 4.2 10.3 - - + +
1535A SER* 3.3 26.5 - - - +
1536A THR* 3.6 18.4 - - - +
1539A LEU* 4.0 15.5 - - + -
1561A ALA 4.1 4.6 + - - +
1562A THR* 3.1 10.7 + - - +
1564A PRO* 1.3 78.2 - - - +
1566A LEU* 1.3 62.8 + - - +
1568A ALA* 3.2 1.8 + - - +
1569A VAL* 3.0 34.0 + - + +
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Residues in contact with LEU1566 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1474A ILE* 4.4 6.3 - - + -
1475A GLN* 3.7 43.7 + - + +
1478A CYS* 4.0 27.6 - - + -
1479A GLN 5.8 0.2 - - - +
1562A THR* 3.0 28.8 + - - +
1563A ALA* 3.8 6.5 - - - +
1565A LEU* 1.3 76.1 - - - +
1567A GLU* 1.3 58.4 + - - +
1569A VAL* 3.4 5.9 + - + +
1570A ASP* 2.9 41.2 + - - +
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Residues in contact with GLU1567 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1531A GLU* 5.7 1.8 - - - +
1563A ALA 2.9 17.8 + - - +
1564A PRO* 3.7 8.3 - - + +
1566A LEU* 1.3 76.8 - - - +
1568A ALA* 1.3 57.5 + - - +
1570A ASP* 3.3 7.9 + - - +
1571A ASN* 2.8 44.9 + - + +
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Residues in contact with ALA1568 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1528A SER* 4.9 2.3 + - - -
1531A GLU* 3.8 42.9 - - + +
1532A VAL* 3.9 21.3 - - + +
1535A SER* 4.4 0.2 - - - +
1564A PRO 3.0 14.4 + - - +
1565A LEU 3.2 8.5 + - - +
1567A GLU* 1.3 76.6 - - - +
1569A VAL* 1.3 57.8 + - - +
1571A ASN* 3.4 1.7 + - - +
1572A LEU* 3.0 30.0 + - - +
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Residues in contact with VAL1569 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1471A ASN* 3.4 43.5 - - + +
1474A ILE* 4.1 19.5 - - + -
1475A GLN* 4.7 3.6 - - + +
1505A LEU* 4.0 25.1 - - + -
1532A VAL* 4.5 4.5 - - + -
1565A LEU* 3.0 30.1 + - + +
1566A LEU* 3.8 6.5 - - + +
1568A ALA* 1.3 77.7 - - - +
1570A ASP* 1.3 64.5 + - - +
1572A LEU* 3.4 7.9 + - + +
1573A SER* 3.0 23.7 + - - +
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Residues in contact with ASP1570 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1471A ASN* 4.4 4.0 + - - +
1475A GLN* 3.4 24.9 + - - -
1566A LEU* 2.9 28.3 + - - +
1567A GLU* 3.8 9.3 - - - +
1569A VAL* 1.3 74.9 - - - +
1571A ASN* 1.3 65.1 + - - +
1573A SER* 3.2 4.7 + - - +
1574A ALA* 2.9 26.3 + - - +
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Residues in contact with ASN1571 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1524A GLN* 3.8 23.2 + - - -
1528A SER* 4.2 1.2 + - - -
1531A GLU* 4.0 14.0 - - - +
1567A GLU* 2.8 35.9 + - + +
1568A ALA* 3.7 6.7 - - - +
1570A ASP* 1.3 73.5 - - - +
1572A LEU* 1.3 62.0 + - - +
1574A ALA* 3.7 5.7 - - - +
1575A PHE* 3.0 26.3 + - - +
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Residues in contact with LEU1572 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1467A PHE* 3.7 32.3 - - + -
1505A LEU* 4.1 24.7 - - + -
1509A CYS* 3.7 24.2 - - - -
1525A PHE* 4.1 13.2 - - + -
1528A SER* 3.7 32.3 + - - +
1532A VAL* 5.0 7.2 - - + -
1568A ALA 3.0 16.5 + - - +
1569A VAL* 3.7 5.8 - - - +
1571A ASN* 1.3 78.3 - - - +
1573A SER* 1.3 64.1 + - - +
1574A ALA 3.3 0.2 + - - -
1575A PHE* 3.4 9.0 + - + -
1576A ALA* 3.1 21.1 + - - +
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Residues in contact with SER1573 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1463A GLU* 4.3 14.8 + - - +
1467A PHE* 4.7 13.5 + - - +
1468A ALA* 5.9 0.2 - - - -
1471A ASN* 3.0 32.0 + - - +
1569A VAL* 3.0 12.2 + - - +
1570A ASP* 3.2 4.5 + - - -
1572A LEU* 1.3 79.4 - - - +
1574A ALA* 1.3 61.1 + - - +
1576A ALA* 3.7 15.2 + - - +
1577A SER* 3.8 9.9 + - - -
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Residues in contact with ALA1574 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1570A ASP 2.9 18.2 + - - +
1571A ASN* 3.7 8.1 - - - +
1573A SER* 1.3 74.7 - - - +
1575A PHE* 1.3 65.9 + - - +
1577A SER* 2.9 18.7 + - - -
1578A ASN* 3.2 13.5 + - - +
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Residues in contact with PHE1575 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1461A LEU* 4.0 4.5 - - + -
1521A ALA* 3.7 32.1 - - + -
1524A GLN* 3.6 37.7 - - + -
1525A PHE* 3.6 37.9 - + - -
1571A ASN* 3.0 19.0 + - - +
1572A LEU* 3.8 14.6 - - + -
1574A ALA* 1.3 76.0 - - - +
1576A ALA* 1.3 68.0 + - - +
1577A SER 2.9 1.4 + - - -
1578A ASN* 2.9 29.8 + - - +
1581A PHE* 3.3 37.9 - + - -
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Residues in contact with ALA1576 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1461A LEU* 3.4 31.4 - - + +
1463A GLU* 3.8 32.5 - - + +
1467A PHE* 4.6 10.8 - - + -
1525A PHE* 5.3 0.9 - - + -
1572A LEU 3.1 17.1 + - - +
1573A SER* 3.7 9.6 - - - +
1574A ALA 3.2 0.2 - - - -
1575A PHE* 1.3 84.6 - - + +
1577A SER* 1.3 58.1 + - - +
1578A ASN 3.5 1.3 + - - +
1581A PHE* 5.8 0.3 - - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il