Contacts of the helix formed by residues 1529 - 1559 (chain C) in PDB entry 5EK0
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 SER1529 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1528C GLN* 1.4 82.7 + - - +
1530C GLN* 1.3 61.7 + - - +
1531C HIS* 3.0 8.7 - - - -
1532C MET* 3.0 35.1 + - - +
1533C THR* 3.1 16.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN1530 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1529C SER* 1.3 73.2 - - - +
1531C HIS* 1.4 59.0 + - - +
1533C THR* 3.9 7.9 + - - -
1534C GLU* 3.6 24.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1531 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1529C SER* 4.6 6.1 - - - -
1530C GLN* 1.4 78.1 + - - +
1532C MET* 1.4 53.6 + - - +
1533C THR 3.3 0.2 - - - -
1534C GLU* 3.0 13.1 + - + +
1535C VAL* 2.8 60.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET1532 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1523C VAL* 4.7 16.2 - - + +
1528C GLN* 4.0 17.3 - - + +
1529C SER* 3.0 26.1 + - - +
1531C HIS* 1.4 79.4 + - - +
1533C THR* 1.3 54.7 + - - +
1535C VAL* 3.5 16.4 - - - +
1536C LEU* 2.8 59.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR1533 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1528C GLN* 2.9 27.0 + - - +
1529C SER 3.1 12.2 + - - -
1530C GLN* 3.9 8.6 - - - -
1532C MET* 1.3 74.4 - - - +
1534C GLU* 1.4 61.9 + - + +
1536C LEU* 4.9 1.1 - - - -
1537C TYR* 3.1 69.0 + - + +
1589C GLU* 5.1 5.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1534 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1530C GLN 3.6 13.6 + - - +
1531C HIS* 3.0 13.3 + - + +
1533C THR* 1.4 76.4 - - + +
1535C VAL* 1.4 61.9 + - + +
1538C TRP* 3.2 40.7 + - + -
1804C PX4 3.3 27.2 + - - -
1805C 5P2 3.7 28.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1535 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1531C HIS* 2.8 48.7 + - + +
1532C MET* 3.2 20.4 + - - +
1534C GLU* 1.4 73.1 - - + +
1536C LEU* 1.4 65.8 + - + +
1538C TRP* 3.3 13.3 + - - +
1539C ILE* 3.3 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1536 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1520C THR* 3.4 28.8 - - + +
1523C VAL* 3.4 33.4 - - + +
1524C GLU* 4.5 11.7 - - + +
1528C GLN* 3.3 28.5 - - - +
1532C MET* 2.8 39.5 + - + +
1533C THR* 4.3 2.2 - - - +
1535C VAL* 1.4 72.4 - - + +
1537C TYR* 1.4 68.1 + - + +
1539C ILE* 3.3 19.3 + - + +
1540C ASN* 3.2 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1537 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1524C GLU* 4.5 9.4 - - - -
1528C GLN* 5.7 2.0 - - - -
1533C THR* 3.1 49.1 + - + +
1536C LEU* 1.4 78.9 - - + +
1538C TRP* 1.4 60.7 + - - +
1540C ASN* 3.3 6.0 + - - +
1541C VAL* 3.2 25.2 + - - +
1589C GLU* 4.3 9.5 + - - -
1598C PHE* 3.5 19.1 - + - -
1602C ARG* 3.2 33.1 + - - -
1805C 5P2 3.5 84.4 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1538 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1534C GLU* 3.2 30.2 + - + -
1535C VAL* 3.3 9.2 + - - +
1537C TYR* 1.4 72.4 - - - +
1539C ILE* 1.4 60.8 + - + +
1540C ASN 3.1 2.0 - - - -
1541C VAL* 3.0 27.1 + - + +
1542C VAL* 2.9 32.8 + - + +
1804C PX4 3.7 25.5 + - - -
1805C 5P2 3.1 67.1 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1539 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1520C THR* 4.2 17.0 - - + -
1535C VAL* 3.3 39.5 - - + +
1536C LEU* 3.3 20.1 + - + +
1538C TRP* 1.4 75.5 - - + +
1540C ASN* 1.3 58.7 + - - +
1542C VAL* 3.3 17.7 - - + +
1543C PHE* 2.8 45.5 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1540 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1517C ASN* 2.7 23.4 - - - +
1520C THR* 4.0 19.2 + - - -
1521C MET* 3.4 16.2 - - - +
1536C LEU* 3.2 23.6 + - - +
1537C TYR* 3.4 8.0 - - - +
1538C TRP 3.1 0.8 - - - -
1539C ILE* 1.3 76.3 - - - +
1541C VAL* 1.4 51.6 + - - +
1543C PHE* 3.0 10.2 + - - +
1544C ILE* 2.8 38.0 + - - +
1605C ARG* 6.1 0.2 - - - +
1608C ARG* 2.8 20.9 + - - +
1805C 5P2 3.1 29.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1541 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1537C TYR 3.2 14.6 + - - +
1538C TRP* 3.0 33.4 + - + +
1540C ASN* 1.4 71.0 - - - +
1542C VAL* 1.4 59.9 + - - +
1544C ILE* 3.9 6.3 - - - -
1545C ILE* 3.0 40.5 + - + +
1582C MET* 3.8 28.9 - - + -
1805C 5P2 3.9 34.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1542 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1538C TRP* 2.9 21.0 + - + +
1539C ILE* 3.3 23.3 - - + +
1540C ASN 3.2 0.2 - - - -
1541C VAL* 1.4 74.2 - - - +
1543C PHE* 1.4 62.3 + - + +
1545C ILE* 3.2 24.7 - - + +
1546C LEU* 3.3 27.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1543 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1513C LEU* 3.1 39.9 - - + -
1516C LEU* 3.5 20.2 - - + -
1517C ASN* 3.4 34.1 - - + +
1520C THR* 3.5 28.0 - - + -
1539C ILE* 2.8 34.6 + - + -
1540C ASN* 3.0 7.7 + - - +
1542C VAL* 1.4 76.9 - - + +
1544C ILE* 1.4 54.1 + - + +
1546C LEU* 2.8 13.8 + - + +
1547C PHE* 2.8 57.5 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1544 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1540C ASN* 2.8 31.1 + - + +
1541C VAL* 3.9 7.4 - - + +
1543C PHE* 1.4 69.4 - - - +
1545C ILE* 1.4 57.3 + - + +
1547C PHE* 3.6 8.0 + - - +
1548C THR* 2.7 33.4 + - - +
1578C SER* 4.3 9.2 - - - +
1579C ILE* 3.7 29.6 - - + +
1582C MET* 3.6 44.0 - - + -
1608C ARG* 3.5 43.7 - - - +
1805C 5P2 4.4 4.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1545 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1541C VAL* 3.0 30.6 + - + +
1542C VAL* 3.2 22.4 - - + +
1544C ILE* 1.4 76.2 - - + +
1546C LEU* 1.4 78.5 + - + +
1548C THR* 3.2 7.9 + - - -
1549C ILE* 3.0 36.1 + - + +
1582C MET* 5.7 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1546 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1509C PHE* 5.1 12.1 - - + -
1510C ILE* 5.6 0.2 - - - +
1513C LEU* 3.9 32.7 - - + +
1542C VAL* 3.3 31.3 + - + +
1543C PHE* 2.8 18.7 + - + +
1545C ILE* 1.4 80.8 - - + +
1547C PHE* 1.3 56.1 + - - +
1549C ILE* 3.3 17.1 + - + +
1550C GLU* 2.9 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1547 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1510C ILE* 4.3 2.7 - - + -
1513C LEU* 3.5 50.0 - - + -
1514C ILE* 3.5 27.1 - - + -
1517C ASN* 3.8 14.8 - - - -
1543C PHE* 2.8 55.7 + + + +
1544C ILE* 4.1 7.0 - - - +
1546C LEU* 1.3 70.2 - - - +
1548C THR* 1.3 59.4 + - - +
1550C GLU* 2.9 28.4 - - + +
1551C ILE 3.4 7.1 + - - -
1575C VAL* 3.4 19.3 - - + +
1608C ARG* 4.5 15.5 - - + -
1611C ARG* 3.7 22.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR1548 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1544C ILE* 2.7 21.5 + - - +
1545C ILE* 3.2 8.8 + - - -
1547C PHE* 1.3 74.3 - - - +
1549C ILE* 1.4 62.4 + - + +
1550C GLU 3.3 0.2 - - - -
1551C ILE* 3.5 11.8 - - + +
1552C ILE* 3.0 36.2 + - + +
1575C VAL* 3.4 11.3 - - + +
1579C ILE* 3.3 33.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1549 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1545C ILE* 3.0 27.6 + - + +
1546C LEU* 3.3 20.2 + - + +
1548C THR* 1.4 78.4 - - + +
1550C GLU* 1.4 55.5 + - - +
1552C ILE* 3.4 13.9 - - + +
1553C LEU* 3.0 48.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1550 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1506C PHE* 3.9 11.5 - - + -
1510C ILE* 3.6 40.4 - - + +
1546C LEU 2.9 16.8 + - - +
1547C PHE* 2.9 26.5 - - + +
1549C ILE* 1.4 76.3 - - - +
1551C ILE* 1.4 71.5 + - - +
1553C LEU* 3.7 4.5 + - - +
1554C ARG* 3.3 46.1 + - - +
1571C ASP* 3.7 10.9 - - - +
1611C ARG* 2.8 35.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1551 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1547C PHE 3.4 8.7 + - - +
1548C THR* 3.5 17.7 - - + +
1550C GLU* 1.4 98.7 - - - +
1552C ILE* 1.4 71.5 + - + +
1554C ARG* 3.5 4.7 - - - +
1555C ILE* 2.7 40.1 + - + +
1562C PHE* 4.4 13.6 - - + -
1571C ASP* 3.9 21.1 - - + +
1572C PHE* 4.4 19.3 - - + +
1575C VAL* 3.7 34.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1552 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1548C THR* 3.0 21.0 + - + +
1549C ILE* 3.4 27.1 + - + +
1551C ILE* 1.4 90.4 - - + +
1553C LEU* 1.4 61.8 + - + +
1555C ILE* 3.5 14.9 - - + +
1556C TYR* 3.1 28.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1553 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1497C ILE* 4.0 27.1 - - + -
1500C ILE* 5.8 4.3 - - + -
1501C VAL* 3.6 34.3 - - + +
1506C PHE* 3.9 22.9 - - + -
1549C ILE* 3.0 39.6 + - + +
1550C GLU* 3.8 4.9 - - - +
1552C ILE* 1.4 78.7 - - + +
1554C ARG* 1.4 59.8 + - - +
1556C TYR* 3.5 18.5 - - - +
1557C VAL* 3.6 8.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1554 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1501C VAL* 3.8 17.9 - - + -
1502C GLU* 5.2 1.8 - - - -
1506C PHE* 3.7 26.5 - - + -
1550C GLU* 3.3 28.9 + - - +
1551C ILE* 3.3 3.5 + - - +
1553C LEU* 1.4 77.4 - - - +
1555C ILE* 1.3 60.6 + - - +
1556C TYR 3.4 0.4 - - - -
1557C VAL 4.0 0.8 + - - -
1558C HIS* 2.8 46.4 + - - -
1562C PHE* 3.2 24.1 - - + -
1567C TRP 4.8 0.2 - - - -
1568C SER* 2.8 45.8 + - - +
1571C ASP* 3.7 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1555 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1551C ILE* 2.7 25.4 + - + +
1552C ILE* 3.5 25.4 - - + +
1554C ARG* 1.3 71.4 - - - +
1556C TYR* 1.4 61.7 + - - +
1557C VAL 3.3 0.7 - - - -
1558C HIS 4.6 0.4 - - - +
1559C ARG* 2.8 59.2 + - - +
1562C PHE* 3.6 37.7 - - + -
1572C PHE* 5.1 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1556 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1493C MET* 4.1 18.4 - - + +
1494C TYR* 3.4 30.8 - + - +
1497C ILE* 3.3 49.6 - - + -
1552C ILE 3.1 18.6 + - - +
1553C LEU* 3.5 11.0 - - - +
1554C ARG 3.4 0.2 - - - -
1555C ILE* 1.4 79.7 - - - +
1557C VAL* 1.3 61.0 + - + +
1559C ARG* 4.1 9.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1557 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1494C TYR* 2.8 24.8 + - + +
1497C ILE 4.5 1.1 - - - +
1498C THR* 3.2 43.7 - - - +
1501C VAL* 3.8 15.9 - - + -
1502C GLU* 4.0 13.5 - - + +
1553C LEU 3.6 16.0 + - - +
1554C ARG 4.2 4.3 - - - +
1555C ILE 3.3 0.2 - - - -
1556C TYR* 1.3 82.6 - - + +
1558C HIS* 1.3 83.2 + - + +
1559C ARG* 5.0 1.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1558 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1502C GLU* 2.8 36.0 + - - -
1554C ARG* 2.8 44.0 + - - +
1557C VAL* 1.3 87.1 - - + +
1559C ARG* 1.4 57.1 + - - +
1560C ILE 2.8 3.3 + - - -
1561C SER* 2.8 40.8 + - - -
1562C PHE* 3.6 34.2 - - + +
1568C SER* 4.3 4.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1559 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1555C ILE* 2.8 49.9 + - - +
1556C TYR* 4.1 7.2 + - - +
1557C VAL 3.5 2.9 - - - +
1558C HIS* 1.4 69.0 - - - +
1560C ILE* 1.4 91.7 + - + +
1562C PHE* 4.4 1.5 - - - +
----------------------------------------------------------
Back to top of page
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