Contacts of the helix formed by residues 1523 - 1545 (chain C) in PDB entry 5JCZ
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 ASP1523 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1518C ALA* 3.1 11.5 + - - +
1521C LEU* 4.1 17.5 - - + +
1522C ASN* 1.3 74.1 - - - +
1524C ASP* 1.3 63.7 + - - +
1525C GLN* 3.3 16.2 + - - +
1526C LYS* 3.2 39.7 + - + +
1527C VAL* 3.1 25.3 + - - +
1591C PHE* 3.8 2.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1524 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1522C ASN 3.4 8.3 + - - +
1523C ASP* 1.3 72.4 - - - +
1525C GLN* 1.3 62.1 + - - +
1527C VAL* 3.8 3.3 - - - +
1528C ARG* 2.9 61.1 + - + +
1591C PHE* 3.5 27.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN1525 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1479C LYS* 4.5 20.6 - - - +
1523C ASP* 3.3 11.2 + - - +
1524C ASP* 1.3 84.2 + - - +
1526C LYS* 1.3 59.6 + - - +
1528C ARG* 3.7 24.2 - - - +
1529C SER* 2.9 38.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1526 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1476C GLU* 5.3 1.8 + - - +
1477C TYR* 2.8 61.8 + - + +
1478C LYS* 4.8 0.4 - - - +
1479C LYS* 4.5 18.2 - - + +
1482C GLU* 4.1 1.0 - - - +
1517C HIS* 5.2 4.3 + - - +
1518C ALA* 3.7 25.6 - - + +
1521C LEU* 4.5 16.1 - - + +
1523C ASP* 3.2 30.8 + - + +
1525C GLN* 1.3 79.0 - - - +
1527C VAL* 1.3 60.4 + - - +
1529C SER* 3.9 4.8 - - - -
1530C LEU* 2.9 30.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1527 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1515C VAL* 4.8 8.5 - - + +
1518C ALA* 3.6 23.1 - - + -
1519C ASP* 4.0 2.2 - - + +
1523C ASP 3.1 16.3 + - - +
1524C ASP* 3.8 6.7 - - - +
1526C LYS* 1.3 77.2 - - - +
1528C ARG* 1.3 64.4 + - + +
1530C LEU* 3.9 3.2 - - - +
1531C LEU* 3.1 46.7 + - + +
1591C PHE* 3.6 30.1 - - + -
1593C LEU* 4.0 19.7 - - + -
1596C TYR* 5.7 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1528 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1524C ASP* 2.9 53.1 + - + +
1525C GLN* 3.7 28.0 - - - +
1527C VAL* 1.3 79.4 - - + +
1529C SER* 1.3 58.5 + - - +
1531C LEU* 4.0 1.0 - - - +
1532C THR* 2.9 38.0 + - - +
1596C TYR* 3.5 27.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER1529 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1482C GLU* 2.2 32.8 + - - -
1525C GLN* 2.9 27.9 + - - -
1526C LYS* 3.9 2.7 - - - -
1528C ARG* 1.3 76.8 - - - +
1530C LEU* 1.3 54.7 + - - +
1532C THR* 3.8 3.9 - - - -
1533C SER* 2.8 41.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1530 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1477C TYR* 3.7 23.8 - - + +
1482C GLU* 3.4 11.2 + - + +
1485C LEU* 4.6 11.2 - - + -
1486C VAL* 5.1 6.7 - - + -
1511C LEU* 4.2 15.0 - - + +
1514C CYS* 3.7 26.7 - - + +
1515C VAL* 3.7 34.1 - - + +
1518C ALA* 5.2 3.4 - - + -
1526C LYS 2.9 20.0 + - - +
1527C VAL* 3.9 3.4 - - - +
1529C SER* 1.3 77.7 - - - +
1531C LEU* 1.3 54.9 + - + +
1533C SER* 3.8 1.4 - - - -
1534C THR* 2.7 47.4 + - - +
1562C PHE* 6.4 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1531 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1515C VAL* 3.9 26.2 - - + -
1527C VAL* 3.1 37.2 + - + +
1528C ARG 4.1 1.3 - - - +
1530C LEU* 1.3 76.1 - - - +
1532C THR* 1.3 61.7 + - - +
1534C THR* 3.5 4.6 + - - -
1535C ILE* 3.1 33.0 + - + +
1562C PHE* 3.9 22.8 - - + -
1566C LEU* 5.0 5.4 - - + -
1593C LEU* 4.0 20.4 - - + -
1596C TYR* 3.7 43.3 - - + -
1600C LEU* 5.6 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR1532 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1528C ARG* 2.9 23.3 + - - +
1529C SER* 3.8 4.9 - - - -
1531C LEU* 1.3 75.5 - - - +
1533C SER* 1.3 59.9 + - - +
1535C ILE* 3.4 7.3 + - - +
1536C ASN* 2.9 48.6 + - - +
1596C TYR* 4.8 8.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER1533 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1482C GLU* 3.1 17.2 + - - -
1483C GLN* 4.1 17.7 + - - -
1486C VAL* 4.0 19.3 - - - -
1529C SER* 2.8 27.9 + - - -
1530C LEU* 3.9 4.7 - - - -
1532C THR* 1.3 74.5 - - - +
1534C THR* 1.3 55.4 + - - +
1536C ASN* 3.8 6.5 - - - +
1537C SER* 2.7 38.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR1534 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1486C VAL* 4.4 1.9 - - - +
1490C ILE* 4.0 10.0 - - + +
1511C LEU* 3.7 42.4 - - + +
1530C LEU* 2.7 27.0 + - - +
1531C LEU* 3.7 7.8 - - - -
1532C THR 3.2 0.2 - - - -
1533C SER* 1.3 77.4 - - - +
1535C ILE* 1.3 63.8 + - + +
1537C SER* 3.7 1.6 - - - -
1538C ILE* 3.1 44.9 + - + +
1562C PHE* 4.2 22.9 - - + -
1600C LEU* 5.7 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1535 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1531C LEU* 3.1 20.7 + - + +
1532C THR* 3.8 6.7 - - - +
1534C THR* 1.3 76.3 - - - +
1536C ASN* 1.3 68.5 + - - +
1538C ILE* 3.4 6.1 + - - +
1539C LYS* 3.1 51.0 + - + +
1562C PHE* 6.2 0.4 - - + -
1596C TYR* 5.0 12.6 - - + +
1599C VAL* 3.7 33.9 - - + -
1600C LEU* 3.9 30.3 - - + -
1603C LEU* 4.5 9.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1536 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1532C THR* 2.9 39.7 + - - +
1533C SER* 4.0 5.3 - - - +
1535C ILE* 1.3 82.9 - - - +
1537C SER* 1.3 57.7 + - - +
1539C LYS* 3.5 13.4 + - - +
1540C LYS* 2.9 29.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER1537 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1483C GLN* 5.7 0.3 + - - -
1486C VAL* 3.4 21.5 - - - +
1490C ILE* 3.7 22.2 - - - -
1491C LEU* 3.5 22.3 - - - +
1533C SER* 2.7 24.4 + - - -
1534C THR 3.7 3.1 - - - -
1535C ILE 3.3 0.2 - - - -
1536C ASN* 1.3 75.3 - - - +
1538C ILE* 1.3 59.2 + - - +
1540C LYS* 3.2 4.5 + - - +
1541C VAL* 2.9 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1538 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1490C ILE* 4.0 17.9 - - + -
1511C LEU* 5.7 0.9 - - + -
1534C THR* 3.1 33.4 + - + +
1535C ILE* 3.8 4.3 - - - +
1537C SER* 1.3 74.6 - - - +
1539C LYS* 1.3 63.7 + - - +
1541C VAL* 3.4 4.5 + - - +
1542C LEU* 3.1 42.0 + - + +
1555C TRP* 4.2 26.2 - - + -
1558C ASN 6.0 0.2 - - - -
1559C THR* 3.7 31.2 - - + +
1562C PHE* 5.9 2.0 - - + -
1600C LEU* 5.3 4.0 - - + -
1603C LEU* 4.1 14.4 - - + -
1607C ILE* 4.1 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1539 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1535C ILE* 3.1 37.7 + - + +
1536C ASN* 3.7 12.6 + - - +
1538C ILE* 1.3 77.1 - - - +
1540C LYS* 1.3 61.2 + - - +
1542C LEU* 3.4 8.0 + - - +
1543C LYS* 3.0 24.7 + - - +
1599C VAL* 5.7 4.4 - - - +
1603C LEU* 3.8 29.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1540 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1491C LEU* 4.2 30.9 - - + +
1536C ASN 2.9 17.9 + - - +
1537C SER* 3.2 8.0 + - - +
1539C LYS* 1.3 75.2 - - - +
1541C VAL* 1.3 64.5 + - - +
1543C LYS* 3.1 8.7 + - + +
1544C LYS* 3.1 25.0 + - + +
----------------------------------------------------------
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
----------------------------------------------------------
1490C ILE* 3.4 29.4 - - + +
1491C LEU* 3.7 21.1 - - + +
1537C SER 2.9 20.5 + - - +
1538C ILE* 3.7 6.1 - - - +
1540C LYS* 1.3 77.4 - - - +
1542C LEU* 1.3 57.5 + - - +
1544C LYS* 3.4 3.6 + - - +
1545C ARG* 3.0 53.2 + - - +
1551C THR* 3.7 18.8 - - + -
1555C TRP* 3.7 17.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1542 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1538C ILE* 3.1 25.5 + - + +
1539C LYS* 3.7 7.9 - - - +
1540C LYS 3.3 0.2 - - - -
1541C VAL* 1.3 76.0 - - + +
1543C LYS* 1.3 56.9 + - - +
1545C ARG 4.8 0.7 - - - +
1546C GLY* 3.1 12.0 - - - -
1551C THR* 4.2 13.7 - - + +
1552C VAL* 3.8 39.5 - - + +
1555C TRP* 4.3 9.4 - - + -
1603C LEU* 5.4 2.5 - - + -
1607C ILE* 3.6 40.6 - - + -
1610C GLN* 3.0 35.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1543 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1539C LYS 3.0 16.6 + - - +
1540C LYS* 3.6 8.1 - - + +
1541C VAL 3.1 0.4 - - - -
1542C LEU* 1.3 79.0 - - - +
1544C LYS* 1.3 63.0 - - - +
1546C GLY* 4.1 4.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1544 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1540C LYS* 3.1 16.2 + - + +
1541C VAL* 4.1 4.0 - - - +
1543C LYS* 1.3 80.4 - - - +
1545C ARG* 1.3 73.7 + - + +
1546C GLY 3.4 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1545 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1490C ILE 4.4 1.0 + - - -
1491C LEU 3.4 22.4 + - - -
1492C GLU* 5.0 1.4 - - - +
1493C LEU 4.1 18.3 + - - -
1495C PRO* 4.5 10.3 - - - +
1541C VAL* 3.0 44.3 + - - +
1542C LEU* 4.6 0.6 - - - -
1544C LYS* 1.3 92.6 - - + +
1546C GLY* 1.3 60.9 + - - +
1547C ASP 3.4 3.0 + - - -
1548C ASP* 3.5 20.6 + - + +
1551C THR* 3.1 43.4 + - + +
1552C VAL* 4.7 1.6 - - - +
1555C TRP* 4.9 1.8 - - - +
----------------------------------------------------------
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