Contacts of the helix formed by residues 1622 - 1637 (chain A) in PDB entry 3AU5
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 SER1622 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1619A HIS* 3.1 32.8 + - - +
1620A PRO 3.2 1.8 + - - -
1621A GLY* 1.3 85.3 - - - +
1623A VAL* 1.3 66.1 + - - +
1624A GLY* 3.6 3.3 + - - -
1625A ASN* 3.1 18.4 + - - +
1626A LEU* 3.0 19.3 + - - +
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Residues in contact with VAL1623 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1622A SER* 1.3 74.0 - - - +
1624A GLY* 1.3 58.4 + - - +
1626A LEU* 3.1 16.6 + - + +
1627A TYR* 2.9 62.7 + - + +
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Residues in contact with GLY1624 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1579A LEU 5.6 1.8 - - - -
1622A SER* 3.3 4.8 + - - -
1623A VAL* 1.3 77.8 - - - +
1625A ASN* 1.3 65.7 + - - +
1627A TYR* 2.9 22.6 + - - +
1628A SER* 3.1 15.7 + - - -
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Residues in contact with ASN1625 (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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1613A GLN 4.4 1.6 + - - -
1614A THR* 4.4 5.5 + - - +
1617A VAL* 3.2 40.9 - - + +
1619A HIS 3.8 8.5 - - - +
1620A PRO* 4.0 2.1 - - - +
1621A GLY* 3.2 12.2 + - - -
1622A SER* 3.1 23.2 + - - +
1624A GLY* 1.3 75.1 - - - +
1626A LEU* 1.3 62.0 + - - +
1628A SER* 3.4 6.8 + - - -
1629A TRP* 3.2 41.9 + - - +
1665A MET* 3.2 27.5 - - - +
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Residues in contact with LEU1626 (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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1621A GLY* 3.8 14.6 - - - +
1622A SER 3.0 22.8 + - - +
1623A VAL* 3.1 14.6 + - + +
1625A ASN* 1.3 76.7 - - - +
1627A TYR* 1.3 66.4 + - + +
1629A TRP* 3.3 5.5 + - - +
1630A GLN* 3.0 39.7 + - - +
1664A GLU* 3.5 37.0 - - + +
1665A MET* 4.6 13.2 - - + -
1668A TYR* 4.3 10.3 - - + -
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Residues in contact with TYR1627 (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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1579A LEU 3.9 26.0 - - - -
1582A MET* 3.1 36.2 + - + -
1585A PRO* 4.0 31.0 - - + -
1589A ILE* 6.1 2.0 - - + -
1623A VAL* 2.9 40.6 + - + +
1624A GLY* 2.9 12.9 + - - +
1626A LEU* 1.3 77.3 - - + +
1628A SER* 1.3 66.3 + - - +
1630A GLN* 3.1 21.9 + - - +
1631A ILE* 2.8 37.2 + - + +
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Residues in contact with SER1628 (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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1610A LEU* 3.7 17.5 - - - +
1613A GLN* 4.3 16.3 + - - +
1614A THR* 3.6 22.9 - - - -
1624A GLY 3.1 13.3 + - - -
1625A ASN* 3.4 12.0 + - - -
1626A LEU 3.2 0.2 - - - -
1627A TYR* 1.3 77.1 - - - +
1629A TRP* 1.3 61.5 + - - +
1631A ILE* 3.2 9.1 + - - +
1632A LEU* 3.0 22.7 + - - +
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Residues in contact with TRP1629 (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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1614A THR* 3.6 34.3 + - + +
1625A ASN* 3.2 31.3 + - - +
1626A LEU* 3.8 5.8 - - - +
1627A TYR 3.2 0.6 - - - -
1628A SER* 1.3 79.2 - - - +
1630A GLN* 1.3 56.3 + - - +
1632A LEU* 3.5 27.4 + - + +
1633A THR* 2.9 32.8 + - - -
1652A HIS* 4.4 2.0 - + - -
1653A LEU* 3.7 22.7 - - + -
1656A ILE* 3.6 44.6 - - + -
1665A MET* 3.4 37.2 - - + +
1668A TYR* 3.7 35.7 - - + +
1669A ALA* 3.9 11.2 - - + -
1672A THR* 5.2 1.3 - - - -
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Residues in contact with GLN1630 (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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1585A PRO* 5.0 1.0 - - - +
1589A ILE* 4.6 7.7 - - + +
1626A LEU* 3.0 29.4 + - - +
1627A TYR* 3.4 32.5 - - - +
1629A TRP* 1.3 74.6 - - - +
1631A ILE* 1.3 66.8 + - - +
1633A THR* 3.4 6.0 + - - -
1634A CYS* 3.0 29.7 + - - -
1668A TYR* 2.9 34.5 + - + +
1695A ILE* 3.6 42.2 - - + +
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Residues in contact with ILE1631 (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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1576A LEU* 5.5 6.1 - - + -
1588A ILE* 6.2 0.9 - - + -
1589A ILE* 4.0 32.8 - - + -
1592A ILE* 4.2 40.8 - - + -
1610A LEU* 4.1 26.5 - - + -
1627A TYR* 2.8 29.5 + - + +
1628A SER* 3.2 10.1 + - - +
1630A GLN* 1.3 77.2 - - - +
1632A LEU* 1.3 57.4 + - - +
1634A CYS* 3.2 3.5 + - - +
1635A LEU* 2.8 31.6 + - + +
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Residues in contact with LEU1632 (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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1607A TYR* 3.8 33.7 - - + +
1610A LEU* 4.0 28.7 - - + +
1611A ILE* 5.3 1.8 - - + +
1614A THR* 4.8 8.3 - - + +
1628A SER 3.0 15.0 + - - +
1629A TRP* 3.6 37.7 - - + +
1631A ILE* 1.3 75.3 - - - +
1633A THR* 1.3 58.3 + - - +
1635A LEU* 3.1 6.9 + - + +
1636A SER* 2.8 30.8 + - - -
1649A LEU* 4.2 20.2 - - + -
1652A HIS* 5.4 1.1 - - + -
1653A LEU* 4.5 2.2 - - + -
1672A THR* 3.9 13.0 - - + +
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Residues in contact with THR1633 (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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1629A TRP 2.9 18.1 + - - -
1630A GLN* 3.6 6.1 - - - -
1631A ILE 3.3 0.2 - - - -
1632A LEU* 1.3 76.2 - - - +
1634A CYS* 1.3 62.8 + - - +
1636A SER* 2.8 18.6 + - - +
1637A CYS* 3.4 9.2 + - - -
1668A TYR* 3.4 24.2 + - + +
1671A PHE* 3.6 33.4 - - + -
1672A THR* 2.9 21.1 + - - +
1694A LEU* 3.8 26.5 - - + +
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Residues in contact with CYS1634 (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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1589A ILE* 4.0 17.5 - - + -
1593A LEU* 4.0 22.4 - - + -
1630A GLN 3.0 19.6 + - - -
1631A ILE 3.6 5.8 - - - +
1633A THR* 1.3 71.7 - - - +
1635A LEU* 1.3 61.9 + - - +
1637A CYS* 2.9 12.0 + - - +
1638A THR* 2.7 25.0 + - - -
1686A PRO* 4.7 0.7 - - + +
1691A ILE* 4.0 20.6 - - + -
1694A LEU* 3.9 33.2 - - + -
1695A ILE* 4.9 4.5 - - - -
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Residues in contact with LEU1635 (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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1592A ILE* 4.4 9.6 - - + -
1593A LEU* 3.2 27.8 - - + -
1606A LEU* 4.2 18.8 - - + -
1607A TYR* 3.1 38.6 + - + +
1610A LEU* 3.8 25.6 - - + -
1631A ILE* 2.8 22.9 + - + +
1632A LEU* 3.3 10.3 - - + +
1634A CYS* 1.3 75.4 - - - +
1636A SER* 1.3 58.5 + - - +
1637A CYS 2.8 6.4 + - - -
1638A THR* 2.8 13.7 + - - -
1639A PHE* 3.1 29.3 + - + +
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Residues in contact with SER1636 (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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1607A TYR* 3.3 12.0 + - - -
1632A LEU 2.8 10.5 + - - -
1633A THR 2.8 17.7 + - - -
1635A LEU* 1.3 71.5 - - - +
1637A CYS* 1.3 49.0 + - - +
1639A PHE 4.4 1.6 - - - +
1672A THR* 3.3 33.2 - - - +
1675A SER* 3.3 21.0 + - - +
1676A LEU* 3.3 26.2 - - - +
1679A THR* 2.5 31.4 + - - +
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Residues in contact with CYS1637 (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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1633A THR 3.8 9.9 - - - +
1634A CYS 2.9 8.7 + - - +
1635A LEU 2.9 1.4 - - - -
1636A SER* 1.3 81.2 + - - +
1638A THR* 1.3 59.0 + - - +
1671A PHE* 4.3 2.2 - - - -
1675A SER* 3.2 30.5 - - - -
1679A THR* 3.4 11.4 + - - +
1682A ARG* 3.7 23.9 + - - +
1686A PRO* 4.6 1.5 - - + +
1690A GLU* 4.9 1.1 - - - +
1694A LEU* 4.0 21.3 - - + -
1718A SER* 3.7 32.9 - - - +
1719A HIS* 4.0 5.3 + - - -
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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