Contacts of the helix formed by residues 1601 - 1614 (chain B) 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 PRO1601 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1546B PRO 4.9 0.7 - - - +
1547B LEU* 3.7 17.5 - - + +
1548B PRO* 4.2 27.8 - - + +
1565B LEU* 3.7 30.5 - - + -
1599B LEU* 3.4 6.5 - - - -
1600B ARG* 1.3 95.7 - - + +
1602B LEU* 1.3 59.9 + - - +
1603B ARG 3.3 0.6 + - - -
1604B ASP* 4.1 9.3 + - - +
1605B GLU 4.2 2.6 + - - -
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Residues in contact with LEU1602 (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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1547B LEU* 3.7 21.3 - - + -
1565B LEU* 3.7 26.2 - - + +
1568B GLU* 4.2 13.2 - - + -
1569B ALA* 4.1 12.1 - - + +
1572B ILE* 4.7 7.0 - - + -
1595B THR* 3.9 17.9 - - + -
1596B GLY* 4.8 4.9 - - - -
1599B LEU* 3.0 45.7 + - + +
1601B PRO* 1.3 77.6 - - - +
1603B ARG* 1.3 58.9 + - - +
1604B ASP 3.3 1.6 - - - -
1605B GLU* 3.1 6.8 + - + -
1606B LEU* 2.8 41.5 + - + +
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Residues in contact with ARG1603 (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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1596B GLY* 3.2 18.4 + - - +
1597B HIS* 2.9 39.6 + - - +
1600B ARG* 3.0 60.7 + - - +
1602B LEU* 1.3 79.7 - - - +
1604B ASP* 1.3 63.6 + - - +
1606B LEU* 3.7 2.8 + - - +
1607B TYR* 3.0 30.7 + - - -
1639B PHE* 3.3 54.3 - - + +
1640B LEU 4.1 14.9 + - - +
1641B PRO* 5.1 0.2 - - + -
1681B CYS* 6.3 1.8 - - - -
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Residues in contact with ASP1604 (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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1545B LEU* 3.7 18.0 - - + +
1600B ARG 4.5 1.2 + - - -
1601B PRO 4.1 6.6 + - - +
1602B LEU 3.3 0.2 - - - -
1603B ARG* 1.3 79.2 - - - +
1605B GLU* 1.3 64.6 + - - +
1607B TYR* 3.2 7.8 + - - +
1608B CYS* 3.0 24.6 + - - -
1641B PRO* 3.5 2.6 - - - +
1642B SER* 2.5 51.8 + - - -
1645B ILE* 3.4 16.5 - - + +
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Residues in contact with GLU1605 (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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1540B LEU* 4.6 0.2 - - - +
1543B PRO* 3.8 6.4 - - - +
1544B LEU* 2.8 34.3 + - - +
1545B LEU* 2.9 38.6 + - - +
1547B LEU* 4.1 6.5 - - + +
1569B ALA* 3.9 17.3 - - + -
1601B PRO 4.2 4.1 + - - +
1602B LEU* 3.1 21.9 + - + +
1604B ASP* 1.3 78.6 - - - +
1606B LEU* 1.3 62.1 + - + +
1608B CYS* 3.1 3.3 + - - +
1609B GLN* 2.8 61.0 + - - +
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Residues in contact with LEU1606 (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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1569B ALA* 5.6 0.7 - - - +
1572B ILE* 3.3 39.3 - - + -
1592B ILE* 3.7 34.5 - - + +
1596B GLY* 4.0 18.2 - - - +
1602B LEU* 2.8 28.7 + - + +
1603B ARG 4.1 3.1 - - - +
1605B GLU* 1.3 77.0 - - + +
1607B TYR* 1.3 57.7 + - - +
1609B GLN* 3.3 10.6 + - - +
1610B LEU* 2.8 43.2 + - + +
1635B LEU* 4.0 24.2 - - + -
1639B PHE* 4.3 2.9 - - + -
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Residues in contact with TYR1607 (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 ARG 3.0 22.5 + - - -
1604B ASP 3.2 8.0 + - - +
1605B GLU 3.2 0.4 - - - -
1606B LEU* 1.3 77.1 - - - +
1608B CYS* 1.3 60.8 + - - +
1610B LEU* 3.3 2.9 + - - +
1611B ILE* 2.7 37.8 + - + +
1632B LEU* 3.6 26.2 - - + -
1635B LEU* 3.3 30.9 + - + -
1636B SER* 3.4 13.3 - - - -
1639B PHE* 2.9 30.1 + + - -
1640B LEU 4.2 0.9 - - - -
1641B PRO* 3.3 35.6 - - + +
1645B ILE* 3.9 14.8 - - + -
1649B LEU* 3.5 30.7 - - + -
1676B LEU* 4.2 1.4 - - - +
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Residues in contact with CYS1608 (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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1506B THR* 4.6 4.7 - - + -
1510B ILE* 4.2 13.2 - - - -
1544B LEU* 3.7 17.1 - - + +
1545B LEU* 3.4 40.8 - - + -
1604B ASP 3.0 9.5 + - - +
1605B GLU 3.7 5.8 - - - +
1607B TYR* 1.3 75.8 - - - +
1609B GLN* 1.3 54.2 + - - +
1611B ILE* 3.8 8.0 - - - +
1612B LYS* 2.7 36.6 + - - +
1645B ILE* 4.0 21.8 - - - -
1648B TYR* 5.1 4.0 - - + -
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Residues in contact with GLN1609 (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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1540B LEU* 4.2 6.9 - - + +
1544B LEU* 3.8 12.8 - - + -
1569B ALA* 3.1 25.5 + - - +
1572B ILE* 4.0 10.7 - - - +
1573B PHE* 3.4 44.7 + - + +
1576B LEU* 4.1 5.2 - - + +
1605B GLU* 2.8 48.8 + - - +
1606B LEU* 3.4 11.5 - - - +
1608B CYS* 1.3 77.7 - - - +
1610B LEU* 1.3 60.4 + - + +
1612B LYS* 3.5 2.2 - - - +
1613B GLN* 2.9 34.6 + - - +
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Residues in contact with LEU1610 (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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1572B ILE* 6.5 0.4 - - + -
1576B LEU* 4.4 23.1 - - + -
1592B ILE* 5.6 3.1 - - + -
1606B LEU* 2.8 40.6 + - + +
1607B TYR 4.0 2.5 - - - +
1609B GLN* 1.3 72.7 - - + +
1611B ILE* 1.3 56.7 + - - +
1613B GLN* 4.4 3.1 - - + +
1614B THR* 2.6 40.5 + - + +
1628B SER* 3.7 34.8 - - - +
1631B ILE* 4.0 30.5 - - + -
1632B LEU* 4.3 27.1 - - + +
1635B LEU* 4.5 9.0 - - + -
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Residues in contact with ILE1611 (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 LEU 5.5 1.6 - - - +
1607B TYR* 2.7 28.5 + - + +
1608B CYS* 3.8 6.1 - - - +
1610B LEU* 1.3 72.3 - - - +
1612B LYS* 1.3 63.8 + - - +
1614B THR* 3.2 8.0 + - - -
1615B ASN* 3.2 24.3 + - + +
1632B LEU* 5.1 2.0 - - + -
1645B ILE* 4.6 6.5 - - + +
1648B TYR* 3.9 38.8 - - + +
1649B LEU* 3.5 54.3 - - + +
1652B HIS* 3.6 25.2 + - + +
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Residues in contact with LYS1612 (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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1531B PRO 3.6 3.8 + - - -
1532B ILE* 3.1 35.0 + - - +
1533B LEU* 3.8 13.5 - - - +
1534B ARG* 2.8 31.0 + - - +
1535B TYR 2.9 22.0 + - - -
1536B THR* 3.4 27.7 - - - +
1540B LEU* 4.3 12.1 - - + +
1544B LEU* 3.8 20.0 - - + -
1573B PHE* 3.7 23.1 - - + -
1608B CYS 2.7 18.4 + - - +
1609B GLN 3.5 2.5 - - - +
1611B ILE* 1.3 77.9 - - - +
1613B GLN* 1.3 62.1 + - - +
1615B ASN 3.1 12.6 + - - +
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Residues in contact with GLN1613 (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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1535B TYR* 3.3 38.6 - - + -
1536B THR 3.2 25.0 + - - -
1573B PHE* 3.4 38.5 - - + -
1576B LEU* 4.9 11.3 + - + -
1577B GLN* 3.9 12.7 - - - +
1609B GLN 2.9 16.0 + - - +
1610B LEU* 4.3 7.2 - - + +
1612B LYS* 1.3 82.1 - - - +
1614B THR* 1.3 61.3 + - - +
1615B ASN 3.4 0.4 - - - -
1617B VAL* 3.1 20.6 - - - +
1625B ASN* 4.4 1.4 + - - -
1628B SER* 4.1 17.0 + - - +
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Residues in contact with THR1614 (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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1610B LEU* 2.6 24.9 + - - +
1611B ILE* 3.2 2.9 + - - -
1612B LYS 3.1 0.2 - - - -
1613B GLN* 1.3 75.9 - - - +
1615B ASN* 1.3 59.3 + - - +
1616B LYS 4.0 1.7 + - - -
1617B VAL* 4.2 10.4 - - - +
1625B ASN* 4.4 4.5 + - - +
1628B SER* 3.4 37.0 - - - +
1629B TRP* 4.0 33.5 + - + +
1632B LEU* 4.6 5.3 - - + +
1652B HIS* 3.1 25.2 + - - -
1656B ILE* 3.9 14.4 - - - +
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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
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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