Contacts of the helix formed by residues 1510 - 1528 (chain A) in PDB entry 3ZQK
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 GLY1510 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1506A SER 3.0 7.3 + - - -
1507A ASP 3.4 9.0 + - - -
1509A ILE* 1.3 81.4 - - - +
1511A GLU* 1.3 66.2 + - - -
1512A ALA 3.4 2.8 + - - -
1514A PHE* 3.0 23.6 + - - +
1570A TYR* 3.5 17.3 - - - -
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Residues in contact with GLU1511 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1510A GLY* 1.3 71.7 - - - -
1512A ALA* 1.3 64.5 + - - +
1514A PHE* 3.2 2.4 + - - +
1515A ASN* 2.9 26.7 + - - +
1569A ARG* 6.2 0.2 - - - -
1570A TYR* 3.7 38.1 - - + -
4676A NAG 2.9 46.3 + - + +
1512B ALA* 3.6 30.1 - - + +
1516B ARG* 5.1 6.3 + - - -
4676B NAG 4.0 10.0 - - + +
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Residues in contact with ALA1512 (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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1510A GLY 3.4 0.6 - - - -
1511A GLU* 1.3 78.6 - - - +
1513A ASP* 1.3 59.3 + - - +
1515A ASN* 3.2 7.0 + - - +
1516A ARG* 3.1 48.6 + - - +
4676A NAG 3.8 25.9 - - + +
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Residues in contact with ASP1513 (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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1509A ILE* 3.4 27.9 - - + +
1510A GLY 3.5 2.0 + - - -
1511A GLU 3.3 0.2 - - - -
1512A ALA* 1.3 75.4 - - - +
1514A PHE* 1.3 65.9 + - - +
1516A ARG* 2.8 28.6 + - - +
1517A SER* 3.0 24.8 + - - -
1654A PHE* 3.4 44.8 - - + +
1655A GLU 5.3 0.2 + - - -
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Residues in contact with PHE1514 (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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1503A LEU* 4.1 28.0 - - + -
1504A GLU 3.8 17.3 - - - -
1505A GLY* 4.0 1.6 - - - -
1509A ILE* 3.6 8.6 - - + +
1510A GLY 3.0 18.8 + - - +
1511A GLU 3.6 2.2 - - - +
1513A ASP* 1.3 77.9 - - - +
1515A ASN* 1.3 66.6 + - - +
1517A SER* 3.0 6.9 + - - -
1518A LYS* 2.8 43.5 + - + -
1541A GLN* 3.3 44.0 - - + -
1568A ILE* 4.4 10.8 - - + -
1569A ARG* 3.9 4.0 - - - -
1570A TYR* 3.5 42.8 - - + -
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Residues in contact with ASN1515 (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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1511A GLU* 2.9 17.8 + - - +
1512A ALA* 3.2 9.8 + - - +
1514A PHE* 1.3 87.9 - - - +
1516A ARG* 1.3 57.5 + - + +
1518A LYS* 3.3 10.9 + - - +
1519A GLU* 3.0 27.0 + - - +
1569A ARG* 5.8 1.9 - - - -
1570A TYR* 5.1 2.1 + - - +
4676A NAG 1.5 70.6 + - - +
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Residues in contact with ARG1516 (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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1512A ALA* 3.1 32.1 + - - +
1513A ASP* 2.8 32.0 + - - +
1514A PHE 3.2 0.2 - - - -
1515A ASN* 1.3 74.6 - - + +
1517A SER* 1.3 65.1 + - - +
1519A GLU* 3.4 8.0 + - - +
1520A PHE* 3.0 21.7 + - - +
1654A PHE* 3.5 37.5 - - + +
1655A GLU* 3.1 27.8 + - - +
1657A LEU* 4.5 2.0 - - - -
1658A PRO* 3.9 15.2 - - + +
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Residues in contact with SER1517 (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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1503A LEU* 4.0 25.8 - - - +
1504A GLU 5.1 3.3 + - - -
1509A ILE* 5.1 1.7 - - - +
1513A ASP 3.0 15.5 + - - -
1514A PHE* 3.0 11.5 + - - -
1516A ARG* 1.3 76.5 - - - +
1518A LYS* 1.3 62.8 + - - +
1520A PHE* 3.3 8.1 + - - +
1521A MET* 3.0 20.6 + - - +
1607A VAL* 3.9 5.3 - - - +
1654A PHE* 3.3 21.3 - - - -
1657A LEU* 3.7 16.0 - - - +
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Residues in contact with LYS1518 (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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1503A LEU* 4.1 8.9 - - + +
1514A PHE* 2.8 29.5 + - + +
1515A ASN* 3.7 11.2 + - - +
1516A ARG 3.3 0.2 - - - -
1517A SER* 1.3 74.5 - - - +
1519A GLU* 1.3 59.2 + - - +
1521A MET* 3.1 20.3 + - + +
1522A GLU* 2.8 59.4 + - - +
1565A LEU 3.0 18.4 + - - +
1566A ARG* 3.2 16.4 + - - +
1568A ILE* 2.9 39.1 + - + +
1569A ARG* 3.6 5.5 - - - +
4676A NAG 5.2 4.9 - - - -
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Residues in contact with GLU1519 (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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1515A ASN 3.0 13.8 + - - +
1516A ARG* 3.5 11.9 - - - +
1517A SER 3.3 0.2 - - - -
1518A LYS* 1.3 71.4 - - - +
1520A PHE* 1.3 66.8 + - - +
1522A GLU* 3.4 16.5 + - - +
1523A GLU* 2.6 63.6 + - - +
1658A PRO* 4.0 12.1 - - + -
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Residues in contact with PHE1520 (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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1501A PHE* 4.6 16.2 - + - -
1503A LEU* 4.8 1.3 - - + -
1516A ARG 3.0 13.3 + - - +
1517A SER 3.4 12.8 - - - +
1519A GLU* 1.3 78.1 - - - +
1521A MET* 1.3 77.4 + - + +
1523A GLU* 3.3 2.8 + - - +
1524A VAL* 3.2 39.2 + - + +
1605A TYR* 5.0 0.7 - - + -
1607A VAL* 3.6 29.8 - - + -
1628A ILE* 3.6 20.4 - - + -
1657A LEU* 3.9 19.7 - - + -
1658A PRO* 3.9 14.1 - - + +
1661A ALA* 3.6 30.5 - - + -
1662A PRO* 3.7 12.5 - - + +
1665A VAL* 3.8 14.4 - - + -
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Residues in contact with MET1521 (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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1501A PHE* 3.6 39.7 - - + -
1503A LEU* 3.8 24.0 - - + -
1517A SER 3.0 12.7 + - - +
1518A LYS* 3.5 24.9 - - + +
1520A PHE* 1.3 87.0 - - + +
1522A GLU* 1.3 64.4 + - + +
1524A VAL* 3.2 6.6 + - - +
1525A ILE* 3.0 32.5 + - + +
1539A VAL* 3.6 27.6 - - + -
1565A LEU* 3.9 23.3 - - + -
1568A ILE* 5.5 2.5 - - + -
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Residues in contact with GLU1522 (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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1518A LYS* 2.8 50.9 + - + +
1519A GLU* 3.8 22.0 - - - +
1521A MET* 1.3 80.0 - - + +
1523A GLU* 1.3 56.5 + - + +
1525A ILE* 3.8 2.8 - - - +
1526A GLN* 3.0 31.4 + - - +
1562A LEU* 4.0 23.4 - - + +
1565A LEU* 3.5 22.0 - - + +
1566A ARG* 3.6 22.5 + - + +
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Residues in contact with GLU1523 (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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1519A GLU* 2.6 53.5 + - - +
1520A PHE 3.7 4.7 - - - +
1522A GLU* 1.3 77.4 - - - +
1524A VAL* 1.3 61.3 + - - +
1526A GLN* 3.5 5.6 + - - +
1527A ARG* 3.2 37.7 + - - +
1658A PRO* 3.2 24.6 - - - +
1659A ARG* 6.0 1.6 + - - -
1662A PRO* 4.0 13.0 - - + +
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Residues in contact with VAL1524 (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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1501A PHE* 3.6 26.0 - - + -
1520A PHE* 3.2 39.9 + - + +
1521A MET 3.6 6.1 - - - +
1523A GLU* 1.3 76.4 - - - +
1525A ILE* 1.3 58.8 + - - +
1527A ARG* 3.1 6.2 + - - +
1528A MET* 2.9 43.4 + - + +
1662A PRO* 3.7 23.1 - - + +
1665A VAL* 4.0 15.5 - - + -
1666A LEU* 4.7 7.8 - - + +
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Residues in contact with ILE1525 (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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1501A PHE* 3.7 24.2 - - + -
1521A MET* 3.0 32.4 + - + +
1522A GLU* 3.9 4.7 - - - +
1524A VAL* 1.3 76.0 - - - +
1526A GLN* 1.3 64.2 + - - +
1527A ARG 3.3 0.5 + - - -
1528A MET* 3.3 21.0 + - + +
1530A VAL* 4.0 15.3 - - + +
1537A VAL* 4.1 13.5 - - + -
1558A LYS* 3.5 19.2 - - + -
1561A ILE* 4.2 10.8 - - + -
1562A LEU* 3.9 22.4 - - + -
1565A LEU* 3.4 32.8 - - + -
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Residues in contact with GLN1526 (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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1522A GLU 3.0 17.8 + - - +
1523A GLU* 3.6 8.1 - - - +
1524A VAL 3.3 0.2 - - - -
1525A ILE* 1.3 76.1 - - - +
1527A ARG* 1.3 60.8 + - + +
1558A LYS* 2.8 28.4 + - - +
1562A LEU* 3.5 28.6 - - + +
1566A ARG* 3.9 16.2 - - - +
1554C GLU* 3.6 20.3 - - - +
1555C ALA* 5.2 4.2 + - - +
1560C ASP* 4.4 6.1 + - - -
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Residues in contact with ARG1527 (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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1523A GLU* 3.2 24.8 + - - +
1524A VAL 3.1 4.9 + - - +
1526A GLN* 1.3 82.7 - - + +
1528A MET* 1.3 61.8 + - - +
1529A ASP 4.1 0.3 + - - -
1558A LYS* 4.8 0.2 - - - -
1662A PRO* 3.8 20.6 - - - +
1663A ASP* 2.9 29.7 + - - +
1666A LEU* 3.4 24.4 - - + +
1673A GLU 4.5 0.9 - - - +
1674A GLY* 2.8 58.5 + - - +
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Residues in contact with MET1528 (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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1499A VAL* 4.8 9.2 - - + -
1501A PHE* 4.0 16.8 - - + -
1524A VAL* 2.9 23.2 + - + +
1525A ILE* 3.3 29.1 + - + -
1527A ARG* 1.3 77.5 - - - +
1529A ASP* 1.3 58.4 + - - +
1530A VAL* 2.8 35.1 + - + -
1535A ILE* 4.1 23.6 - - + -
1537A VAL* 4.2 5.6 - - + -
1558A LYS* 3.0 23.2 + - - -
1605A TYR* 6.1 0.7 - - - -
1665A VAL* 5.8 0.4 - - - -
1666A LEU* 3.9 20.2 - - + -
1669A CYS* 4.5 9.6 - - - -
1670A CYS* 4.4 4.5 - - - -
1673A GLU 5.7 0.2 - - - -
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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
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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) + - + + + + + -
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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