Contacts of the helix formed by residues 1595 - 1618 (chain C) in PDB entry 3B13
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 LEU1595 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1524C ILE* 3.9 16.6 - - + -
1525C ASN* 3.9 21.3 - - - +
1528C SER* 4.3 7.6 - - - +
1591C VAL* 3.5 22.8 - - + +
1592C SER* 3.2 11.7 + - - +
1594C ASN* 1.3 75.8 - - + +
1596C ARG* 1.3 65.5 + - - +
1597C PRO* 3.4 2.7 - - - -
1598C PHE* 3.2 17.1 - - + +
1599C HIS 2.8 18.7 + - - -
5D LYS* 4.2 11.9 - - - +
56D TRP* 5.4 0.7 - - + -
70D LEU 4.0 13.0 - - - +
71D SER* 4.6 0.4 - - - +
73D PRO* 3.4 38.6 - - + +
74D GLN* 4.4 10.5 - - - +
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Residues in contact with ARG1596 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1588C GLU* 3.0 48.4 + - - +
1591C VAL* 3.2 25.2 + - - +
1592C SER 3.1 8.7 + - - +
1593C ASP* 3.6 27.9 + - - +
1594C ASN 3.2 0.2 - - - -
1595C LEU* 1.3 76.9 - - - +
1597C PRO* 1.3 65.8 - - + +
1599C HIS* 2.9 16.9 + - - +
1600C ASP* 2.8 48.3 + - - +
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Residues in contact with PRO1597 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1593C ASP 4.0 5.2 - - - +
1594C ASN 3.5 13.7 - - - +
1595C LEU 3.5 3.8 - - - -
1596C ARG* 1.3 95.2 - - + +
1598C PHE* 1.3 63.2 + - - +
1600C ASP* 3.1 12.9 + - + +
1601C ARG* 2.9 23.7 + - - +
70D LEU* 4.1 22.7 - - + +
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Residues in contact with PHE1598 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1528C SER* 3.7 17.7 - - - -
1532C ASN* 3.5 30.7 - - + -
1587C HIS* 4.0 7.0 - + - -
1595C LEU* 3.2 28.3 - - + +
1596C ARG 3.2 0.2 - - - -
1597C PRO* 1.3 81.0 - - - +
1599C HIS* 1.3 67.0 + - - +
1601C ARG* 3.1 5.5 + - + +
1602C MET* 2.9 56.2 + - + +
56D TRP* 3.7 25.4 - + - -
70D LEU* 3.4 46.8 + - + +
71D SER* 4.2 6.5 - - - -
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Residues in contact with HIS1599 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1584C ILE* 3.7 23.1 - - + -
1587C HIS* 2.8 30.4 + - + -
1588C GLU* 3.2 48.6 - - + +
1591C VAL* 4.1 9.9 - - + -
1595C LEU 2.8 16.9 + - - +
1596C ARG* 2.9 17.4 + - - +
1598C PHE* 1.3 81.0 - - - +
1600C ASP* 1.3 70.4 + - - +
1602C MET* 3.1 9.6 + - - +
1603C GLU* 2.8 38.6 + - + +
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Residues in contact with ASP1600 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1596C ARG* 2.8 46.1 + - - +
1597C PRO* 3.5 12.2 - - + +
1599C HIS* 1.3 76.1 - - - +
1601C ARG* 1.3 58.4 + - - +
1603C GLU* 3.1 11.3 - - - +
1604C GLU* 2.9 37.7 + - + +
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Residues in contact with ARG1601 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1532C ASN* 5.8 2.0 - - - +
1536C ASP* 3.7 16.1 + - - +
1597C PRO 2.9 5.8 + - - +
1598C PHE* 3.4 10.1 - - + +
1600C ASP* 1.3 74.5 - - - +
1602C MET* 1.3 64.5 + - - +
1604C GLU* 3.0 31.8 + - - +
1605C CYS* 3.0 50.1 + - - +
64D TYR* 4.4 11.5 + - - -
67D LEU* 3.6 37.2 - - + +
70D LEU* 3.5 28.7 - - + -
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Residues in contact with MET1602 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1528C SER* 3.4 15.3 - - - +
1531C LEU* 3.9 19.1 - - - -
1532C ASN* 3.2 36.1 - - + +
1535C VAL* 4.0 8.2 - - + +
1584C ILE* 4.6 19.3 - - + -
1587C HIS* 4.1 16.2 - - - +
1598C PHE* 2.9 55.5 + - + +
1599C HIS* 3.4 11.2 - - - +
1601C ARG* 1.3 76.7 - - - +
1603C GLU* 1.3 62.2 + - - +
1605C CYS* 3.4 6.7 + - - +
1606C PHE* 2.9 24.8 + - - +
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Residues in contact with GLU1603 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1584C ILE* 3.7 22.3 - - - +
1588C GLU* 4.4 6.9 - - - +
1599C HIS* 2.8 32.2 + - + +
1600C ASP* 3.1 17.7 - - - +
1602C MET* 1.3 77.5 - - - +
1604C GLU* 1.3 54.8 + - + +
1606C PHE* 3.2 13.9 + - - +
1607C LYS* 2.9 64.7 + - - +
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Residues in contact with GLU1604 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1600C ASP* 2.9 23.7 + - + +
1601C ARG* 3.0 34.7 + - - +
1603C GLU* 1.3 72.7 - - - +
1605C CYS* 1.3 66.5 + - - +
1607C LYS* 3.1 12.3 + - - +
1608C ASN* 2.9 25.1 + - - +
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Residues in contact with CYS1605 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1535C VAL* 3.9 20.5 - - + +
1536C ASP* 3.8 20.0 - - + -
1601C ARG* 3.0 54.7 + - - +
1602C MET* 3.8 7.4 - - - +
1604C GLU* 1.3 78.3 - - - +
1606C PHE* 1.3 56.8 + - - +
1608C ASN* 3.5 8.0 + - - +
1609C LEU* 2.9 30.7 + - - +
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Residues in contact with PHE1606 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1535C VAL* 3.7 8.9 - - + +
1577C ILE* 3.3 42.8 - - + -
1578C PRO* 5.6 0.2 - - + -
1580C LEU* 3.9 18.6 - - + -
1581C GLY* 3.5 28.3 - - - -
1584C ILE* 3.5 27.4 - - + -
1602C MET 2.9 15.1 + - - +
1603C GLU* 3.4 13.0 - - - +
1605C CYS* 1.3 75.8 - - - +
1607C LYS* 1.3 73.6 + - + +
1609C LEU* 4.4 4.7 - - + -
1610C LYS* 2.8 55.4 + - + +
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Residues in contact with LYS1607 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1603C GLU* 2.9 52.0 + - - +
1604C GLU* 3.1 8.7 + - - +
1606C PHE* 1.3 85.3 - - + +
1608C ASN* 1.3 57.7 + - - +
1610C LYS* 3.3 9.9 + - + +
1611C MET* 2.9 28.8 + - - +
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Residues in contact with ASN1608 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1604C GLU 2.9 16.0 + - - +
1605C CYS* 3.7 7.9 + - - +
1607C LYS* 1.3 77.8 - - - +
1609C LEU* 1.3 63.3 + - - +
1611C MET* 3.1 33.7 + - - +
1612C LYS* 3.0 41.9 + - - +
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Residues in contact with LEU1609 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1534C ILE 5.2 2.0 - - - +
1535C VAL* 4.5 21.1 - - + +
1543C PHE* 3.9 23.1 - - + -
1576C GLN* 5.6 0.2 - - - +
1577C ILE* 3.8 18.4 - - + -
1580C LEU* 4.2 20.4 - - + -
1605C CYS 2.9 19.0 + - - +
1606C PHE* 3.7 4.9 - - + +
1608C ASN* 1.3 78.9 - - - +
1610C LYS* 1.3 57.5 + - - +
1612C LYS* 3.2 12.8 + - + +
1613C VAL* 2.8 49.0 + - + +
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Residues in contact with LYS1610 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1577C ILE* 3.5 33.7 - - + +
1606C PHE* 2.8 45.7 + - + +
1607C LYS* 3.3 11.4 - - + +
1609C LEU* 1.3 68.8 - - - +
1611C MET* 1.3 68.3 + - - +
1614C GLU* 2.9 58.2 + - - +
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Residues in contact with MET1611 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1607C LYS 2.9 13.2 + - - +
1608C ASN* 3.1 35.4 - - - +
1610C LYS* 1.3 77.4 - - - +
1612C LYS* 1.3 70.8 + - + +
1614C GLU* 4.0 4.1 - - - +
1615C LYS* 3.0 40.9 + - - +
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Residues in contact with LYS1612 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1608C ASN* 3.0 37.4 + - - +
1609C LEU* 3.2 12.5 + - + +
1611C MET* 1.3 88.4 - - + +
1613C VAL* 1.3 61.3 + - + +
1615C LYS* 3.4 9.9 + - + +
1616C GLU* 3.0 29.6 + - - +
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Residues in contact with VAL1613 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1543C PHE* 3.8 15.5 - - + -
1573C ILE* 3.9 21.3 - - + -
1574C ALA* 4.0 14.4 - - + -
1577C ILE* 3.4 37.2 - - + -
1609C LEU* 2.8 40.3 + - + +
1610C LYS 4.1 0.2 - - - +
1612C LYS* 1.3 70.9 - - + +
1614C GLU* 1.3 69.6 + - + +
1616C GLU* 4.8 0.2 - - - -
1617C TYR* 2.8 33.2 + - + -
1618C GLY 3.5 2.8 + - - +
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Residues in contact with GLU1614 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1577C ILE* 4.8 8.8 - - + +
1610C LYS* 2.9 52.6 + - + +
1611C MET* 4.0 3.4 - - - +
1613C VAL* 1.3 77.6 - - + +
1615C LYS* 1.3 63.0 + - - +
1618C GLY* 2.8 41.7 + - - +
1619C VAL* 4.0 31.7 - - + +
1620C ARG 5.0 2.8 + - - +
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Residues in contact with LYS1615 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1611C MET* 3.0 28.9 + - - +
1612C LYS* 3.5 10.1 - - - +
1614C GLU* 1.3 78.4 - - - +
1616C GLU* 1.3 62.4 + - - +
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Residues in contact with GLU1616 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1547C GLU* 5.5 0.4 - - - +
1612C LYS 3.0 17.0 + - - +
1613C VAL 3.2 0.2 + - - -
1615C LYS* 1.3 82.2 - - + +
1617C TYR* 1.3 97.4 + - + +
1618C GLY 3.6 0.2 - - - -
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Residues in contact with TYR1617 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1543C PHE* 5.1 0.4 - + - -
1547C GLU* 3.1 43.5 + - + +
1551C PHE* 3.4 16.6 - + - -
1570C LYS* 3.6 52.0 - - + +
1573C ILE* 3.9 26.2 - - + -
1574C ALA* 4.2 16.6 - - + -
1613C VAL* 2.8 18.8 + - + +
1616C GLU* 1.3 100.9 - - + +
1618C GLY* 1.3 58.6 + - - +
1620C ARG* 2.9 25.5 + - - +
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Residues in contact with GLY1618 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1574C ALA* 4.5 6.8 - - - +
1613C VAL* 3.8 2.9 - - - +
1614C GLU* 2.8 36.3 + - - +
1616C GLU 3.6 1.2 - - - -
1617C TYR* 1.3 81.4 - - - +
1619C VAL* 1.3 66.3 + - - -
1620C ARG* 4.3 2.2 + - - -
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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