Contacts of the helix formed by residues 1656 - 1674 (chain H) in PDB entry 6X34
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 ARG1656 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1237H TRP* 5.1 13.1 - - - -
1604H SER* 5.7 0.4 + - - -
1605H TRP* 4.1 19.6 + - - +
1606H SER* 5.4 2.6 - - - +
1648H MET* 3.4 43.7 - - - +
1649H ASP 5.3 0.6 + - - +
1652H GLU 4.2 9.3 + - - -
1653H LEU* 3.2 45.7 + - + +
1654H SER 3.5 0.4 - - - -
1655H GLU* 1.3 77.0 - - + +
1657H LEU* 1.3 62.4 + - - +
1658H ASP* 3.3 2.7 - - + +
1659H LEU* 4.4 20.1 - - + +
1660H GLN* 3.6 14.6 + - - +
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Residues in contact with LEU1657 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1654H SER 5.0 3.4 - - - +
1655H GLU 3.0 11.5 + - - +
1656H ARG* 1.3 70.8 - - - +
1658H ASP* 1.3 65.1 + - - +
1659H LEU 3.5 0.2 - - - -
1660H GLN* 3.6 20.9 + - - +
1661H GLN* 3.7 13.0 + - - +
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Residues in contact with ASP1658 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656H ARG* 3.3 1.7 - - + +
1657H LEU* 1.3 81.7 - - - +
1659H LEU* 1.3 72.0 + - + +
1660H GLN 3.5 0.2 + - - -
1661H GLN* 3.9 3.1 + - - +
1662H PHE* 3.7 17.2 + - - +
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Residues in contact with LEU1659 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595H ARG* 6.5 0.7 - - - -
633H LEU* 4.3 26.9 - - + +
1639H LEU* 6.3 0.7 - - + -
1641H ILE* 4.9 14.4 - - + -
1648H MET* 5.1 12.6 - - + -
1653H LEU* 4.5 20.1 - - + +
1656H ARG* 3.9 21.0 + - + +
1658H ASP* 1.3 85.3 - - + +
1660H GLN* 1.3 59.5 + - - +
1661H GLN 3.5 0.2 - - - -
1662H PHE* 3.9 9.8 - - + +
1663H HIS* 3.0 29.8 + - - +
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Residues in contact with GLN1660 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1653H LEU* 4.4 19.2 - - + +
1654H SER* 4.5 11.7 - - - +
1656H ARG 3.6 14.8 + - - +
1657H LEU* 3.9 16.4 - - - +
1658H ASP 3.3 0.8 - - - -
1659H LEU* 1.3 76.0 - - - +
1661H GLN* 1.3 60.9 + - - +
1663H HIS* 3.3 5.7 + - - +
1664H SER* 2.9 27.4 + - - -
1704H PRO* 4.3 15.1 - - + +
1706H PRO* 4.0 30.1 - - + +
1707H LEU* 4.5 15.5 - - + +
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Residues in contact with GLN1661 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597H HIS* 3.5 16.5 - - + +
598H LYS* 4.1 11.3 + - - +
1657H LEU 3.7 12.3 + - - +
1658H ASP 4.4 3.6 - - - +
1660H GLN* 1.3 79.3 - - - +
1662H PHE* 1.3 58.3 + - - +
1664H SER* 3.3 5.9 + - - -
1665H HIS* 2.9 61.8 + - + +
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Residues in contact with PHE1662 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590H LEU* 5.6 6.7 - - + -
595H ARG* 3.6 50.5 - - + -
596H ASN 4.5 9.2 - - - -
597H HIS* 5.0 5.3 - - + +
600H LEU* 3.7 25.4 - - + -
631H LEU 4.3 3.6 - - - -
632H LEU* 3.6 29.6 - - + -
633H LEU* 3.4 33.0 - - + -
1658H ASP 3.7 14.7 + - - +
1659H LEU* 3.6 9.8 + - + +
1660H GLN 3.3 0.2 - - - -
1661H GLN* 1.3 80.3 - - - +
1663H HIS* 1.3 52.7 + - - +
1665H HIS* 3.3 5.7 + - - +
1666H THR* 2.6 39.2 + - - -
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Residues in contact with HIS1663 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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633H LEU* 4.8 24.4 - - + +
635H THR* 4.3 18.1 - - + +
1639H LEU* 6.0 4.3 - - + -
1650H ILE* 6.1 2.2 - - - +
1653H LEU* 5.5 8.3 - - + -
1659H LEU 3.0 19.6 + - - +
1660H GLN* 3.7 5.6 - - - +
1662H PHE* 1.3 76.2 - - - +
1664H SER* 1.3 60.7 + - - +
1666H THR* 3.3 7.8 + - + +
1667H LEU* 2.9 60.4 + - + +
1707H LEU* 3.8 33.7 - - + -
1711H TYR* 3.4 22.3 + + - -
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Residues in contact with SER1664 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1660H GLN* 2.9 17.6 + - - -
1661H GLN* 3.3 7.8 + - - -
1663H HIS* 1.3 77.6 - - - +
1665H HIS* 1.3 62.9 + - - +
1667H LEU* 3.3 7.4 + - - +
1668H ARG* 2.9 34.7 + - - +
1706H PRO* 3.9 30.8 + - - +
1707H LEU* 4.9 4.7 - - - +
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Residues in contact with HIS1665 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597H HIS* 2.8 39.3 + - + +
598H LYS* 5.4 2.0 - - + -
600H LEU* 3.5 23.5 - - + +
601H ASP* 5.3 5.1 + - + -
1661H GLN* 2.9 51.1 + - + +
1662H PHE* 3.8 4.9 - - - +
1664H SER* 1.3 79.1 - - - +
1666H THR* 1.3 60.5 + - - +
1668H ARG* 3.3 25.4 + - - +
1669H LEU* 2.9 29.8 + - - +
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Residues in contact with THR1666 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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600H LEU* 3.5 10.7 - - + +
632H LEU* 3.6 34.9 - - + +
633H LEU* 5.0 6.8 - - + +
1662H PHE* 2.6 30.7 + - - -
1663H HIS* 3.6 12.0 - - + +
1665H HIS* 1.3 76.8 - - - +
1667H LEU* 1.3 60.0 + - + +
1669H LEU* 3.3 4.7 + - + +
1670H TYR* 2.9 55.1 + - + -
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Residues in contact with LEU1667 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1663H HIS* 2.9 60.6 + - + +
1664H SER* 3.7 7.2 - - - +
1666H THR* 1.3 78.0 - - + +
1668H ARG* 1.3 58.8 + - - +
1670H TYR* 3.3 8.9 + - + -
1671H ARG* 2.9 24.6 + - - +
1689H VAL* 6.3 2.9 - - + -
1706H PRO 5.9 0.2 - - - +
1707H LEU* 5.2 4.7 - - - +
1710H GLY* 3.9 21.5 - - - +
1711H TYR* 3.7 31.4 - - + -
1714H LEU* 3.1 37.2 - - + +
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Residues in contact with ARG1668 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604H CYS* 4.8 20.9 - - + -
1664H SER* 2.9 24.3 + - - +
1665H HIS* 3.6 25.5 + - - +
1666H THR 3.3 0.4 - - - -
1667H LEU* 1.3 76.2 - - - +
1669H LEU* 1.3 56.6 + - - +
1671H ARG* 3.2 7.4 + - - +
1672H ALA* 2.9 28.3 + - + +
1710H GLY* 6.4 0.2 - - - -
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Residues in contact with LEU1669 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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600H LEU* 4.3 23.8 - - + +
603H LEU* 3.8 36.3 - - + +
604H CYS* 4.0 17.7 - - - +
607H CYS* 5.4 4.0 - - + -
621H ILE* 6.5 0.9 - - + -
625H LEU* 4.2 24.2 - - + -
632H LEU* 6.2 2.0 - - + -
1665H HIS 2.9 18.0 + - - +
1666H THR* 3.7 6.1 - - + +
1668H ARG* 1.3 78.3 - - - +
1670H TYR* 1.3 65.8 + - + +
1672H ALA* 3.3 3.7 + - + -
1673H VAL* 2.9 38.3 + - + +
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Residues in contact with TYR1670 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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625H LEU* 4.0 18.3 - - + +
626H LEU* 3.7 31.2 - - + +
632H LEU* 4.2 14.4 - - - +
633H LEU 4.8 9.0 + - - -
1666H THR* 2.9 39.8 + - + +
1667H LEU* 3.7 13.5 - - + +
1669H LEU* 1.3 83.8 - - + +
1671H ARG* 1.3 61.2 + - - +
1673H VAL* 3.2 24.6 - - + +
1674H CYS* 3.9 7.8 + - - +
1685H LEU* 5.2 9.9 - - + +
1688H HIS* 5.7 7.5 + + + -
1689H VAL* 5.5 12.3 - - + -
1714H LEU* 3.7 24.4 - - + +
1717H SER* 4.9 0.2 + - - -
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Residues in contact with ARG1671 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1667H LEU 2.9 16.1 + - - +
1668H ARG* 3.6 7.4 - - + +
1669H LEU 3.2 0.2 - - - -
1670H TYR* 1.3 77.5 - - - +
1672H ALA* 1.3 60.6 + - - +
1674H CYS 3.2 20.4 - - - +
1675H ALA* 4.0 4.0 - - - +
1713H ASP* 4.3 22.4 - - + +
1714H LEU* 3.6 19.0 - - + +
1717H SER* 3.5 10.2 + - - -
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Residues in contact with ALA1672 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604H CYS* 4.1 27.8 - - + +
607H CYS* 3.4 18.1 - - + -
608H VAL* 5.4 9.8 - - + +
618H GLN* 4.5 1.9 + - - -
1668H ARG* 2.9 17.7 + - + +
1669H LEU* 4.0 4.3 - - + +
1671H ARG* 1.3 74.5 - - - +
1673H VAL* 1.3 64.7 + - - +
1674H CYS 3.2 1.2 + - - -
1675H ALA* 4.1 13.5 + - - +
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Residues in contact with VAL1673 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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607H CYS* 3.6 15.9 - - - -
618H GLN* 2.9 38.0 + - + +
621H ILE* 5.1 8.5 - - + -
622H THR* 4.4 8.1 - - - +
1669H LEU* 2.9 22.8 + - + +
1670H TYR* 3.2 31.6 - - + +
1672H ALA* 1.3 77.6 - - - +
1674H CYS* 1.3 60.1 + - + +
1675H ALA 3.8 0.4 - - - -
1681H VAL* 3.3 26.3 - - + +
1685H LEU* 5.4 5.4 - - + -
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Residues in contact with CYS1674 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1670H TYR 3.9 7.8 + - - +
1671H ARG 3.2 3.4 + - - +
1672H ALA 3.2 0.4 - - - -
1673H VAL* 1.3 80.9 - - + +
1675H ALA* 1.3 62.0 + - - +
1678H ASN 4.4 7.6 - - - +
1681H VAL* 3.7 21.8 - - + +
1682H ALA* 4.4 13.7 - - + -
1685H LEU* 5.0 6.1 - - + -
1717H SER* 2.3 46.1 + - - +
1718H ILE* 5.5 2.5 - - + -
1721H GLU* 5.6 0.9 - - - -
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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
------------------------------------------------------------
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