Contacts of the helix formed by residues 1697 - 1713 (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 THR1697 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1662B ASP* 3.4 26.7 - - - +
1665B VAL* 3.4 23.0 - - - +
1696B GLN* 1.3 83.6 - - + +
1698B THR* 1.3 66.1 + - - +
1699B GLU* 3.6 4.5 + - - +
1700B ASP* 3.1 31.0 + - - +
1701B LEU* 3.8 10.2 + - - +
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Residues in contact with THR1698 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1652B HIS* 6.0 0.8 - - + -
1655B VAL* 4.6 5.1 - - - +
1656B SER* 4.8 5.7 + - - -
1659B TYR* 4.1 18.1 + - - +
1660B PRO 6.1 0.2 - - - -
1661B THR* 5.0 2.7 - - - -
1662B ASP* 3.0 24.0 + - - +
1665B VAL* 4.3 9.0 - - - -
1697B THR* 1.3 79.9 - - - +
1699B GLU* 1.3 73.5 + - + +
1701B LEU* 3.6 4.9 + - - +
1702B ILE* 3.0 39.3 + - + +
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Residues in contact with GLU1699 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1648B LYS* 4.3 18.3 + - - +
1652B HIS* 3.2 35.4 + - - -
1697B THR* 3.4 4.1 + - - +
1698B THR* 1.3 89.1 - - + +
1700B ASP* 1.3 64.3 + - - +
1701B LEU 3.2 1.1 - - - -
1702B ILE* 3.4 24.9 - - + +
1703B GLN* 3.0 27.4 + - + +
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Residues in contact with ASP1700 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1693B PRO* 4.5 8.5 - - + +
1694B LYS* 3.1 40.6 + - - +
1695B LYS* 3.9 2.9 - - - -
1696B GLN* 3.3 26.5 + - - +
1697B THR* 3.1 29.0 + - - +
1699B GLU* 1.3 75.9 - - - +
1701B LEU* 1.3 61.3 + - - +
1703B GLN* 4.1 2.9 - - - +
1704B SER* 3.1 26.7 + - - -
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Residues in contact with LEU1701 (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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1550B ILE* 4.2 3.4 - - + -
1655B VAL* 4.0 18.6 - - + -
1659B TYR* 3.6 44.9 - - + -
1665B VAL* 4.4 4.5 - - + -
1671B LEU* 3.5 34.5 - - + -
1674B TRP* 4.4 2.7 - - + -
1695B LYS* 3.7 22.3 - - + +
1697B THR 3.8 8.4 + - - +
1698B THR* 3.6 9.1 + - - +
1699B GLU 3.2 0.2 - - - -
1700B ASP* 1.3 76.3 - - - +
1702B ILE* 1.3 64.6 + - - +
1704B SER* 3.4 1.0 + - - -
1705B CYS* 3.0 41.7 + - - +
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Residues in contact with ILE1702 (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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1648B LYS* 4.2 13.2 - - - +
1651B VAL* 3.9 10.9 - - + +
1652B HIS* 3.8 44.6 - - + +
1655B VAL* 3.2 31.0 - - + -
1656B SER* 4.4 0.9 - - - +
1698B THR* 3.0 26.1 + - - +
1699B GLU* 3.4 36.7 + - - +
1701B LEU* 1.3 74.2 - - - +
1703B GLN* 1.3 56.3 + - - +
1705B CYS* 3.5 2.3 + - - +
1706B SER* 2.9 34.7 + - - +
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Residues in contact with GLN1703 (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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1603B THR* 5.5 2.2 - - + +
1606B ALA* 4.1 9.7 - - - +
1608B PRO* 6.0 0.3 - - - +
1644B TRP* 3.9 19.7 - - - -
1648B LYS* 3.1 44.9 + - - +
1699B GLU* 3.0 18.4 + - + +
1700B ASP* 4.2 3.4 - - - +
1702B ILE* 1.3 76.5 - - - +
1704B SER* 1.3 57.5 + - - +
1706B SER* 3.5 1.6 - - - -
1707B ILE* 2.9 47.6 + - + +
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Residues in contact with SER1704 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1674B TRP* 5.5 1.6 - - - -
1675B TRP* 4.0 17.2 - - - -
1693B PRO* 3.5 20.1 - - - +
1695B LYS* 3.1 32.9 + - - -
1700B ASP 3.1 8.9 + - - -
1701B LEU 3.9 2.7 - - - -
1703B GLN* 1.3 76.4 - - - +
1705B CYS* 1.3 62.1 + - - +
1707B ILE* 3.6 10.3 + - - +
1708B ILE* 3.3 30.6 + - - +
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Residues in contact with CYS1705 (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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1550B ILE* 4.2 12.8 - - - -
1553B LEU* 3.9 21.3 - - + -
1554B LEU* 4.2 12.6 - - + -
1651B VAL* 3.7 19.3 - - + +
1655B VAL* 5.2 0.4 - - - -
1674B TRP* 4.7 5.2 - - - -
1701B LEU* 3.0 39.6 + - - +
1702B ILE 3.7 3.8 - - - +
1704B SER* 1.3 77.2 - - - +
1706B SER* 1.3 58.4 + - - +
1708B ILE* 4.0 6.2 - - - +
1709B VAL* 3.0 32.2 + - - +
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Residues in contact with SER1706 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1644B TRP* 3.2 27.4 - - - -
1647B ILE* 4.1 10.8 - - - +
1648B LYS* 3.2 37.7 - - - +
1651B VAL* 4.3 4.7 - - - +
1702B ILE 2.9 21.8 + - - -
1703B GLN* 3.1 9.8 + - - -
1705B CYS* 1.3 74.6 - - - +
1707B ILE* 1.3 60.5 + - - +
1709B VAL* 3.6 1.6 + - - +
1710B TRP* 3.0 23.6 + - - +
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Residues in contact with ILE1707 (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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1600B TRP* 6.5 0.2 - - + -
1602B PHE* 3.5 30.3 - - + +
1603B THR* 3.8 26.7 - - + +
1605B GLN* 3.8 16.4 - - + -
1606B ALA* 4.0 5.8 - - + +
1644B TRP* 4.0 19.1 - - + -
1693B PRO* 6.5 0.7 - - + -
1703B GLN* 2.9 31.9 - - + +
1704B SER* 3.7 10.1 - - - +
1706B SER* 1.3 77.3 - - - +
1708B ILE* 1.3 65.3 + - + +
1710B TRP* 3.4 1.6 + - - +
1711B THR* 3.0 33.2 + - + +
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Residues in contact with ILE1708 (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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1533B MET* 3.7 7.6 - - + +
1536B PHE* 4.0 39.3 - - + -
1554B LEU* 3.8 28.9 - - + -
1557B HIS* 5.4 2.9 - - + -
1558B TYR* 3.8 30.5 - - + +
1674B TRP* 4.4 12.8 - - + -
1675B TRP* 4.8 3.8 - - + -
1704B SER 3.3 18.5 + - - +
1705B CYS 4.1 3.8 - - - +
1706B SER 3.4 0.2 - - - -
1707B ILE* 1.3 76.0 - - + +
1709B VAL* 1.3 66.3 + - - +
1711B THR* 3.1 16.6 + - - -
1712B ALA* 3.3 13.5 + - - +
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Residues in contact with VAL1709 (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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1553B LEU* 5.5 2.9 - - + -
1554B LEU* 3.8 19.3 - - + -
1557B HIS* 3.5 36.8 - - + +
1647B ILE* 3.6 33.0 - - + -
1650B TRP* 5.5 3.4 - - + +
1651B VAL* 4.5 8.3 - - + -
1705B CYS 3.0 20.0 + - - +
1708B ILE* 1.3 76.4 - - - +
1710B TRP* 1.3 60.0 + - - +
1712B ALA* 3.4 3.8 + - - +
1713B SER* 2.7 31.4 + - - +
1790B LEU* 4.3 6.1 - - + -
1811B PHE* 5.5 1.6 - - + -
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Residues in contact with TRP1710 (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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1605B GLN 3.4 26.0 + - - -
1606B ALA* 4.6 0.2 - - - -
1607B LEU* 3.4 29.0 - - + +
1636B TYR* 3.3 30.9 + + - -
1640B GLY* 3.5 33.4 - - - -
1643B ILE* 4.4 1.8 - - + -
1644B TRP* 3.3 45.8 - + + -
1647B ILE* 3.9 12.7 - - + +
1706B SER 3.0 8.0 + - - +
1707B ILE 3.8 1.6 - - - +
1708B ILE 3.4 0.2 - - - -
1709B VAL* 1.3 74.3 - - - +
1711B THR* 1.3 65.0 + - + +
1713B SER* 3.9 4.0 - - - -
1714B ALA* 3.0 40.8 + - + -
1715B LEU* 2.8 47.8 + - + +
1845B LEU* 4.9 0.9 - - + -
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Residues in contact with THR1711 (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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1528B ASN 4.3 9.2 - - - +
1529B THR* 3.8 5.0 + - - -
1532B VAL* 5.8 5.4 - - + -
1533B MET* 3.1 17.4 - - - +
1600B TRP* 6.3 0.4 - - + -
1605B GLN* 4.1 27.1 - - + -
1707B ILE* 3.0 17.7 + - + +
1708B ILE* 3.1 12.0 + - - -
1710B TRP* 1.3 77.7 - - + +
1712B ALA* 1.3 61.3 + - - +
1715B LEU* 3.6 25.4 - - + -
1716B HIS* 3.4 14.9 + - - +
1862B ILE* 3.2 15.5 - - - +
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Residues in contact with ALA1712 (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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1533B MET* 4.4 6.1 - - + -
1557B HIS* 3.5 31.6 - - + +
1708B ILE 3.3 15.9 + - - +
1709B VAL 3.7 2.5 - - - +
1710B TRP 3.2 0.4 - - - -
1711B THR* 1.3 83.1 + - - +
1713B SER* 1.3 60.7 + - - +
1716B HIS* 3.6 8.0 - - - +
1860B ASN 3.4 9.0 - - - +
1861B SER 2.9 25.3 - - - +
1862B ILE* 3.5 13.0 - - + -
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Residues in contact with SER1713 (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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1647B ILE* 3.7 11.4 - - - +
1709B VAL* 2.7 24.9 + - - -
1710B TRP 3.7 0.3 + - - -
1712B ALA* 1.3 76.6 - - - +
1714B ALA* 1.3 66.1 + - - +
1715B LEU 3.7 0.2 - - - -
1716B HIS* 4.1 0.2 - - - +
1717B ALA* 3.1 29.3 + - - +
1790B LEU* 3.5 31.2 - - - +
1858B ILE* 3.6 5.1 - - - +
1859B PRO* 3.3 21.3 - - - +
1860B ASN 3.4 7.0 - - - -
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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