Contacts of the helix formed by residues 2025 - 2044 (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 PRO2025 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1973H ASN* 5.7 6.5 - - + -
2023H PRO 4.9 0.4 - - - +
2024H LEU* 1.3 109.3 - - + +
2026H ASP* 1.3 59.4 + - - +
2027H GLU* 3.0 17.6 + - + +
2028H ILE* 3.4 20.3 + - + -
2029H ARG* 4.0 2.1 + - - +
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Residues in contact with ASP2026 (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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2013H PHE* 5.4 7.2 - - + -
2024H LEU 3.5 3.1 + - - -
2025H PRO* 1.3 70.5 - - - +
2027H GLU* 1.3 63.8 + - - +
2028H ILE 3.3 0.7 - - - -
2029H ARG* 3.4 11.4 + - + +
2030H GLN* 3.1 35.2 + - - +
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Residues in contact with GLU2027 (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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2025H PRO* 3.0 9.0 + - + +
2026H ASP* 1.3 80.0 - - - +
2028H ILE* 1.3 65.7 + - + +
2030H GLN* 3.6 18.1 + - - +
2031H ASP* 4.2 3.8 + - - +
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Residues in contact with ILE2028 (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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1966H TYR* 3.6 27.9 - - + +
1969H LYS* 4.8 14.1 - - + +
1970H LEU* 3.9 14.6 - - + -
1973H ASN* 3.9 28.5 - - + -
2024H LEU* 3.9 20.9 - - + -
2025H PRO* 3.4 12.9 + - + +
2026H ASP 3.3 0.2 - - - -
2027H GLU* 1.3 78.9 - - + +
2029H ARG* 1.3 65.9 + - - +
2030H GLN 3.3 0.5 + - - -
2031H ASP* 3.4 15.5 + - + +
2032H LEU 3.5 6.9 + - - -
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Residues in contact with ARG2029 (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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1966H TYR* 4.3 6.0 + - - +
2013H PHE* 3.6 42.9 - - + -
2024H LEU* 4.8 5.1 - - + +
2025H PRO 4.0 3.6 + - - +
2026H ASP* 3.4 14.2 + - - +
2027H GLU 3.3 0.8 - - - -
2028H ILE* 1.3 76.4 - - - +
2030H GLN* 1.3 60.2 + - - +
2031H ASP 3.3 0.2 - - - -
2032H LEU* 3.2 11.2 + - + +
2033H LEU* 2.9 33.8 + - + +
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Residues in contact with GLN2030 (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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2013H PHE* 5.1 4.5 - - - -
2026H ASP* 3.1 27.1 + - + +
2027H GLU* 3.7 11.2 - - - +
2028H ILE 3.2 0.8 - - - -
2029H ARG* 1.3 77.8 - - - +
2031H ASP* 1.3 57.7 + - - +
2033H LEU* 3.2 31.5 - - - +
2034H GLU* 2.9 29.9 + - - +
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Residues in contact with ASP2031 (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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1962H PHE* 4.3 8.1 - - + -
1966H TYR* 5.8 2.7 - - + -
2027H GLU 4.2 3.0 + - - +
2028H ILE* 3.4 11.2 + - + +
2029H ARG 3.3 0.4 - - - -
2030H GLN* 1.3 78.0 - - - +
2032H LEU* 1.3 57.9 + - - +
2034H GLU* 3.7 5.9 - - - +
2035H PHE* 2.9 31.7 + - - +
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Residues in contact with LEU2032 (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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1962H PHE* 3.9 28.5 - - + -
1966H TYR* 3.3 46.3 - - + +
2011H LEU 4.9 7.2 - - - +
2013H PHE* 4.8 16.8 - - + -
2028H ILE 3.5 2.0 + - - -
2029H ARG* 3.2 12.1 + - + +
2030H GLN 3.2 0.4 - - - -
2031H ASP* 1.3 79.8 - - - +
2033H LEU* 1.3 57.4 + - - +
2035H PHE* 3.8 1.7 - - - +
2036H HIS* 2.9 29.5 + - + +
3649H PHE* 4.6 10.3 - - + -
3653H TYR* 4.7 13.5 - - + -
3657H TRP* 4.4 22.2 - - + +
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Residues in contact with LEU2033 (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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2013H PHE* 4.2 25.8 - - + -
2029H ARG 2.9 19.5 + - - +
2030H GLN* 3.2 43.1 - - - +
2032H LEU* 1.3 77.6 - - - +
2034H GLU* 1.3 64.1 + - + +
2036H HIS* 3.3 9.0 + - - +
2037H GLN* 2.9 30.5 + - + +
3657H TRP* 5.8 7.6 - - + -
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Residues in contact with GLU2034 (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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2030H GLN 2.9 18.3 + - - +
2031H ASP* 3.7 7.9 - - - +
2032H LEU 3.3 0.2 - - - -
2033H LEU* 1.3 82.6 - - + +
2035H PHE* 1.3 57.0 + - - +
2037H GLN* 3.3 7.2 + - - +
2038H ASP* 2.9 28.5 + - - +
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Residues in contact with PHE2035 (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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1746H THR* 6.1 0.9 - - - -
1747H LEU* 4.6 21.3 - - + -
1958H SER* 4.4 16.4 - - - -
1959H LEU* 4.6 11.7 - - + -
1962H PHE* 3.4 65.3 - + + -
1965H ARG* 5.4 3.1 - - - -
2031H ASP 2.9 17.2 + - - +
2032H LEU 3.8 0.2 - - - +
2034H GLU* 1.3 75.9 - - - +
2036H HIS* 1.3 59.9 + - - +
2038H ASP* 3.6 9.1 - - + +
2039H LEU* 2.9 49.4 + - + +
3653H TYR* 5.5 4.9 - + - -
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Residues in contact with HIS2036 (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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2032H LEU* 2.9 20.1 + - + +
2033H LEU* 3.5 10.7 + - - +
2034H GLU 3.2 0.2 - - - -
2035H PHE* 1.3 78.3 - - - +
2037H GLN* 1.3 57.4 + - - +
2039H LEU* 3.2 5.1 + - + +
2040H LEU* 2.9 73.0 + - + +
3653H TYR* 3.1 30.3 - + + +
3657H TRP* 3.3 57.1 + + + +
3658H ILE* 5.0 2.7 - - + +
3661H GLU* 4.8 6.7 - - + +
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Residues in contact with GLN2037 (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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2033H LEU* 2.9 17.8 + - + +
2034H GLU* 3.7 6.5 - - - +
2036H HIS* 1.3 78.3 + - - +
2038H ASP* 1.3 57.7 + - - +
2040H LEU* 3.3 9.8 + - - +
2041H THR* 2.8 36.1 + - + +
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Residues in contact with ASP2038 (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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1747H LEU* 5.7 6.3 - - + -
1748H PHE* 3.5 24.5 - - + -
2034H GLU 2.9 17.0 + - - +
2035H PHE* 3.6 13.5 - - + +
2036H HIS 3.2 0.2 - - - -
2037H GLN* 1.3 77.9 - - - +
2039H LEU* 1.3 56.4 + - - +
2041H THR* 2.7 19.6 + - - -
2042H HIS* 2.9 19.6 + - - +
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Residues in contact with LEU2039 (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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1747H LEU* 6.0 5.6 - - + +
1955H ARG* 4.8 19.1 - - + +
1959H LEU* 3.7 33.2 - - + +
2035H PHE* 2.9 37.1 + - + +
2036H HIS* 3.6 6.1 - - + +
2038H ASP* 1.3 76.0 - - - +
2040H LEU* 1.3 71.4 + - + +
2042H HIS* 3.8 6.4 + - + +
2043H CYS* 2.9 33.0 + - + +
2132H LEU* 5.6 1.6 - - + -
2135H LEU* 4.4 25.1 - - + -
3653H TYR* 5.1 9.0 - - + +
3658H ILE* 5.5 5.6 - - + -
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Residues in contact with LEU2040 (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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2036H HIS* 2.9 63.1 + - + +
2037H GLN* 3.7 8.7 - - - +
2038H ASP 3.3 0.2 - - - -
2039H LEU* 1.3 87.6 - - + +
2041H THR* 1.3 61.3 + - + +
2043H CYS* 3.4 4.6 + - - +
2044H GLY 3.3 4.7 + - - -
2045H ILE* 2.8 48.2 + - + +
2132H LEU* 5.3 10.8 - - + -
3657H TRP 5.8 0.2 - - - +
3658H ILE* 5.9 2.7 - - + -
3661H GLU* 4.1 23.6 - - + +
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Residues in contact with THR2041 (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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1748H PHE* 3.8 10.7 - - - -
1761H HIS* 4.2 8.7 + - - -
2037H GLN* 2.8 18.5 + - + +
2038H ASP* 2.7 21.8 + - - -
2040H LEU* 1.3 75.8 - - + +
2042H HIS* 1.3 60.0 + - - +
2044H GLY* 3.5 9.7 + - - -
2045H ILE 3.5 14.4 - - - +
2046H GLN* 5.6 4.3 - - - +
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Residues in contact with HIS2042 (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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1747H LEU* 4.5 16.9 + - + +
1748H PHE* 3.6 25.1 - + + -
1761H HIS* 3.4 46.7 + + + +
1762H GLY 5.9 1.0 + - - -
1951H GLU* 3.9 15.2 + - + +
1954H HIS* 5.9 6.8 - + - -
1955H ARG* 3.2 49.6 + - + +
2038H ASP 2.9 17.7 + - - +
2039H LEU* 3.8 6.8 + - - +
2040H LEU 3.2 0.2 - - - -
2041H THR* 1.3 76.3 + - - +
2043H CYS* 1.3 60.5 + - - +
2044H GLY* 3.1 3.2 + - - -
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Residues in contact with CYS2043 (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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1955H ARG* 4.6 17.9 - - - +
2039H LEU* 2.9 21.0 + - + +
2040H LEU 3.4 4.9 + - - +
2042H HIS* 1.3 80.0 + - - +
2044H GLY* 1.3 57.1 + - - +
2045H ILE 3.6 1.6 - - - +
2128H GLN 5.6 1.4 - - - +
2131H GLY* 3.6 41.2 + - - -
2132H LEU* 3.8 16.4 - - + -
2135H LEU* 3.7 18.4 - - + -
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Residues in contact with GLY2044 (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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2040H LEU 3.3 1.0 + - - -
2041H THR 3.5 5.8 + - - -
2042H HIS 3.1 6.2 - - - -
2043H CYS* 1.3 78.9 - - - +
2045H ILE* 1.3 63.1 + - - +
2046H GLN* 3.6 3.6 + - - +
3663H HIS* 4.8 2.8 + - - -
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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