Contacts of the helix formed by residues 1766 - 1781 (chain B) in PDB entry 2IUK
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 PRO1766 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1298B PHE* 6.5 1.3 - - + -
1305B SER* 3.7 11.7 - - - +
1306B GLU* 4.8 6.3 - - - +
1307B PHE* 4.2 2.7 - - + -
1451B THR* 6.2 0.7 - - + -
1736B LEU* 3.9 9.4 - - + -
1738B ARG* 3.3 37.7 - - - +
1764B ILE 3.4 7.0 - - - +
1765B THR* 1.3 83.7 - - + +
1767B LYS* 1.3 58.4 + - - +
1768B PHE* 3.2 3.8 - - + +
1769B GLU* 3.1 26.7 - - - +
1770B THR* 2.7 37.0 + - - -
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Residues in contact with LYS1767 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1297B ILE* 4.3 10.8 - - + -
1303B THR* 3.7 27.3 - - + +
1304B SER* 3.3 21.5 + - - +
1305B SER* 3.0 23.1 + - - +
1306B GLU* 3.4 22.9 + - - +
1307B PHE* 3.7 36.1 - - + -
1312B ASP* 3.5 22.0 + - - -
1316B LEU* 5.3 0.2 - - - +
1321B ILE* 4.2 15.8 - - + +
1322B LYS* 4.8 3.4 - - - +
1766B PRO* 1.3 70.5 - - - +
1768B PHE* 1.3 59.1 + - - +
1770B THR* 3.6 2.3 - - - -
1771B LEU* 3.0 37.7 + - + +
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Residues in contact with PHE1768 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1290B ILE* 3.4 39.5 - - + -
1293B PHE* 3.7 17.3 - - + -
1294B LYS* 3.5 35.0 - - + -
1297B ILE* 3.9 19.2 - - + +
1298B PHE* 4.0 26.5 - + + -
1305B SER 4.3 1.4 + - - +
1581B LYS* 4.4 12.1 - - + -
1766B PRO* 3.2 2.3 - - + +
1767B LYS* 1.3 81.2 - - - +
1769B GLU* 1.4 79.2 - - - +
1771B LEU* 3.2 6.3 + - - +
1772B ILE* 3.0 40.1 + - + +
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Residues in contact with GLU1769 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1298B PHE* 5.7 1.6 - - - -
1581B LYS* 3.5 37.9 + - - +
1582B SER* 4.4 5.5 + - - -
1736B LEU* 3.9 11.0 - - + -
1765B THR* 3.5 19.5 - - + -
1766B PRO* 3.1 33.8 + - - +
1768B PHE* 1.4 96.4 - - - +
1770B THR* 1.4 55.9 + - - +
1772B ILE* 3.4 14.7 - - + +
1773B ASP* 2.8 35.9 + - - +
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Residues in contact with THR1770 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1307B PHE* 3.5 20.9 - - + -
1313B VAL* 5.4 0.7 - - + -
1316B LEU* 4.4 5.4 - - + -
1730B ILE* 3.6 30.6 - - + +
1765B THR* 3.3 23.4 + - - +
1766B PRO 2.7 24.6 + - - -
1767B LYS 3.6 4.7 - - - -
1769B GLU* 1.4 72.5 - - - +
1771B LEU* 1.3 56.5 + - - +
1773B ASP* 3.3 4.6 + - - -
1774B LEU* 2.8 52.1 + - + +
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Residues in contact with LEU1771 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1293B PHE* 3.8 44.5 - - + -
1297B ILE* 4.5 12.1 - - + -
1316B LEU* 3.7 35.7 - - + -
1321B ILE* 4.7 17.7 - - + -
1323B LEU* 5.4 2.5 - - + -
1351B PHE* 3.9 24.5 - - + -
1767B LYS* 3.0 27.3 + - + +
1768B PHE 3.2 8.3 + - - +
1770B THR* 1.3 74.0 - - + +
1772B ILE* 1.4 58.3 + - - +
1774B LEU* 4.9 0.4 - - + -
1775B SER* 2.7 31.6 + - - -
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Residues in contact with ILE1772 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1290B ILE* 4.0 40.5 - - + +
1293B PHE* 4.7 0.6 - - + -
1578B ILE* 3.9 20.1 - - + +
1581B LYS* 4.1 27.1 - - + -
1582B SER* 3.0 20.4 - - - +
1768B PHE* 3.0 47.4 + - + +
1769B GLU* 3.3 20.2 + - + +
1771B LEU* 1.4 69.4 - - - +
1773B ASP* 1.3 62.7 + - - +
1775B SER* 4.0 1.8 - - - -
1776B VAL* 3.3 21.5 + - - +
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Residues in contact with ASP1773 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1582B SER* 4.1 12.8 - - - +
1583B PHE* 3.8 10.9 - - - -
1727B GLY 4.4 3.6 - - - +
1730B ILE* 3.4 14.1 - - + +
1733B ARG 4.7 0.7 - - - +
1735B THR* 3.3 32.2 - - + +
1769B GLU 2.8 21.5 + - - +
1770B THR* 3.6 4.7 - - - +
1772B ILE* 1.3 69.9 - - - +
1774B LEU* 1.3 65.4 + - - +
1775B SER 3.0 0.9 + - - -
1776B VAL* 3.1 7.0 + - - +
1777B ILE* 2.7 62.0 + - - +
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Residues in contact with LEU1774 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1313B VAL* 6.5 0.4 - - + -
1316B LEU* 4.2 18.4 - - + -
1317B TYR* 6.5 0.7 - - + -
1351B PHE* 4.4 21.4 - - + -
1724B TYR* 3.5 18.0 - - + +
1727B GLY 3.6 19.7 - - - +
1728B GLY* 3.3 31.9 - - - +
1730B ILE* 4.5 6.5 - - + +
1770B THR* 2.8 43.4 + - + +
1771B LEU 4.5 0.4 - - - +
1773B ASP* 1.3 79.0 - - - +
1775B SER* 1.3 56.4 + - - +
1777B ILE* 4.2 6.1 - - - -
1778B GLU* 3.0 29.3 + - - +
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Residues in contact with SER1775 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1285B LEU* 3.5 27.4 - - - -
1293B PHE* 3.8 4.5 - - - -
1340B ILE* 4.4 3.6 - - - +
1341B PHE* 3.2 27.0 - - - -
1351B PHE* 3.5 11.4 - - - -
1771B LEU 2.7 22.2 + - - -
1772B ILE 4.0 1.3 - - - -
1773B ASP 3.0 2.0 + - - -
1774B LEU* 1.3 75.1 - - - +
1776B VAL* 1.3 62.8 + - - -
1778B GLU* 3.5 5.4 + - - +
1779B ILE* 3.2 25.8 + - - +
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Residues in contact with VAL1776 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1282B ILE* 4.8 9.2 - - + -
1285B LEU* 3.3 15.3 - - + +
1572B LEU* 3.9 27.1 - - + -
1578B ILE* 3.4 25.8 - - + -
1579B ILE* 5.2 6.1 - - + -
1582B SER* 5.1 1.1 - - - +
1583B PHE* 6.0 2.0 - - + -
1772B ILE 3.3 13.2 + - - +
1773B ASP* 3.1 15.4 + - - +
1775B SER* 1.3 72.3 - - - +
1777B ILE* 1.3 67.7 + - + +
1778B GLU 3.0 4.5 - - - -
1779B ILE* 3.0 4.7 + - - +
1780B LEU* 2.9 50.6 + - + +
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Residues in contact with ILE1777 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1517B SER* 5.9 2.7 - - - +
1521B GLN* 4.7 2.2 - - - +
1583B PHE* 4.5 13.2 - - + -
1723B GLN* 3.6 37.6 - - + +
1724B TYR* 3.4 35.3 + - + +
1727B GLY* 4.1 13.7 - - - +
1735B THR* 5.6 1.1 - - + -
1773B ASP* 2.7 42.7 + - - +
1774B LEU* 4.1 3.8 - - - +
1776B VAL* 1.3 75.2 - - + +
1778B GLU* 1.3 55.8 + - - +
1780B LEU* 3.8 5.6 + - + -
1781B SER* 2.8 28.6 + - - -
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Residues in contact with GLU1778 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1339B GLU* 3.5 24.9 - - - +
1340B ILE* 2.7 48.5 - - + +
1351B PHE* 4.6 5.2 - - - -
1352B PRO* 3.3 21.1 - - - +
1724B TYR* 3.8 24.2 - - + -
1774B LEU 3.0 18.7 + - - +
1775B SER* 3.7 5.6 - - - +
1776B VAL 3.0 0.8 - - - -
1777B ILE* 1.3 74.7 - - - +
1779B ILE* 1.3 61.2 + - - +
1780B LEU 3.0 2.0 + - - -
1781B SER 3.4 3.5 + - - -
1782B ARG* 2.9 38.9 - - - +
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Residues in contact with ILE1779 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1278B LEU* 3.5 47.2 - - + +
1281B GLY* 3.3 33.9 - - - +
1282B ILE* 3.8 14.4 - - + +
1285B LEU* 3.9 15.5 - - + -
1336B ALA 6.0 0.2 - - - +
1337B LEU* 3.8 17.5 - - + -
1340B ILE* 3.6 23.6 - - + -
1775B SER 3.2 13.0 + - - +
1776B VAL* 3.0 6.9 + - - +
1778B GLU* 1.3 73.6 - - - +
1780B LEU* 1.3 59.5 + - - +
1782B ARG* 4.3 5.9 + - - +
1864B ILE* 3.6 13.1 - - - +
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Residues in contact with LEU1780 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1282B ILE* 4.1 24.5 - - + -
1521B GLN* 4.6 12.6 - - - +
1525B HIS* 4.8 4.9 - - + -
1564B ILE* 6.4 0.2 - - + -
1572B LEU* 4.8 12.8 - - + -
1579B ILE* 5.6 4.7 - - + -
1720B ASN* 3.2 22.7 + - - +
1723B GLN* 3.6 29.2 - - - +
1776B VAL* 2.9 35.8 + - + +
1777B ILE* 3.9 10.8 - - + +
1778B GLU 3.0 0.2 - - - -
1779B ILE* 1.3 78.1 - - - +
1781B SER* 1.3 57.0 + - - +
1782B ARG 3.3 5.4 + - - -
1864B ILE* 3.5 34.9 - - + +
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Residues in contact with SER1781 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1720B ASN 3.7 11.2 - - - -
1721B PHE* 3.3 36.3 - - - +
1723B GLN* 3.1 8.1 - - - +
1724B TYR* 3.0 19.0 + - - +
1777B ILE 2.8 17.7 + - - -
1778B GLU 3.4 3.4 + - - -
1780B LEU* 1.3 73.6 - - - +
1782B ARG* 1.3 82.7 + - - +
1852B GLY 3.9 4.5 - - - +
1854B THR 4.5 3.1 - - - +
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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