Contacts of the helix formed by residues 1580 - 1596 (chain A) in PDB entry 6FF7
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 HIS1580 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1557A LEU* 6.0 6.5 - - - -
1577A PHE 5.1 1.2 + - - -
1578A ARG 3.9 3.6 + - - -
1579A ALA* 1.3 72.6 - - - +
1581A LEU* 1.3 58.1 + - - +
1582A TRP* 3.3 3.8 - - - +
1583A GLN* 3.6 10.7 + - + +
1584A LYS* 3.1 24.3 + - - +
226t TYR* 5.6 9.1 - - + +
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Residues in contact with LEU1581 (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 ILE 6.0 0.7 - - - +
1577A PHE* 5.5 7.5 + - - -
1578A ARG 5.3 5.6 - - - +
1579A ALA 3.2 12.0 - - - +
1580A HIS* 1.3 75.7 - - - +
1582A TRP* 1.3 60.9 + - - +
1584A LYS* 3.6 11.3 - - + +
1585A ILE* 2.9 28.4 + - - +
1739A ALA* 4.9 6.6 - - + +
1743A LEU* 5.8 8.1 - - + -
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Residues in contact with TRP1582 (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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1557A LEU* 3.3 29.6 - - + +
1558A THR* 5.3 2.0 - - - -
1577A PHE* 6.1 6.7 - - + +
1580A HIS* 5.1 1.1 - - - -
1581A LEU* 1.3 76.8 - - - +
1583A GLN* 1.3 57.7 + - - +
1585A ILE* 3.2 7.8 + - - +
1586A HIS* 3.0 24.3 + - - +
1619A SER* 4.8 8.6 - - - -
1620A TYR* 6.3 0.7 - - + -
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Residues in contact with GLN1583 (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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1580A HIS* 3.6 13.4 + - + +
1582A TRP* 1.3 75.9 - - - +
1584A LYS* 1.3 61.0 + - - +
1586A HIS* 3.3 9.7 - - + +
1587A GLU* 2.9 30.3 + - - +
1619A SER* 4.7 8.7 - - - -
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Residues in contact with LYS1584 (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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1580A HIS 3.1 18.6 + - - +
1581A LEU* 3.6 12.3 - - + +
1582A TRP 3.2 0.4 - - - -
1583A GLN* 1.3 75.4 - - - +
1585A ILE* 1.3 59.1 + - - +
1587A GLU* 3.8 4.3 - - - +
1588A SER* 2.8 32.6 + - - -
1739A ALA* 4.0 12.6 - - + -
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Residues in contact with ILE1585 (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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1581A LEU 2.9 17.3 + - - +
1582A TRP* 3.6 6.5 - - - +
1584A LYS* 1.3 72.1 - - - +
1586A HIS* 1.3 66.3 + - - +
1588A SER* 3.9 1.2 - - - -
1589A ILE* 2.9 27.9 + - - +
1739A ALA* 3.9 15.6 - - + +
1740A LEU* 5.2 11.4 - - + +
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Residues in contact with HIS1586 (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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1582A TRP 3.0 14.0 + - - +
1583A GLN* 3.3 15.9 - - + +
1585A ILE* 1.3 75.8 - - - +
1587A GLU* 1.3 57.3 + - - +
1589A ILE* 4.1 1.1 - - - +
1590A VAL* 3.0 31.8 + - - +
1619A SER* 4.2 17.7 - - - -
1664A ILE* 6.1 2.0 - - - +
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Residues in contact with GLU1587 (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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1583A GLN 2.9 19.7 + - - +
1584A LYS* 4.1 4.5 - - - +
1586A HIS* 1.3 72.4 - - - +
1588A SER* 1.3 57.0 + - - +
1590A VAL* 3.8 3.3 - - - +
1591A MET* 2.9 31.8 + - - +
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Residues in contact with SER1588 (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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1584A LYS 2.8 19.8 + - - -
1585A ILE* 3.9 3.4 - - - -
1587A GLU* 1.3 78.3 - - - +
1589A ILE* 1.3 57.6 + - - +
1591A MET* 3.3 6.8 + - - +
1592A ASP* 2.9 26.7 + - - +
1737A ASN* 6.1 4.3 - - - -
1738A PRO* 5.8 3.6 - - - -
1739A ALA* 4.2 19.1 - - - -
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Residues in contact with ILE1589 (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 ILE 2.9 17.3 + - - +
1586A HIS* 4.4 1.6 - - - +
1588A SER* 1.3 76.0 - - - +
1590A VAL* 1.3 59.4 + - - +
1592A ASP* 3.3 7.9 + - + +
1593A LEU* 2.9 30.0 + - - +
1664A ILE* 5.8 8.1 - - + -
1733A ILE* 5.6 7.9 - - + -
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Residues in contact with VAL1590 (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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1586A HIS 3.0 18.3 + - - +
1587A GLU* 4.2 4.0 - - - +
1589A ILE* 1.3 74.5 - - - +
1591A MET* 1.3 60.6 + - - +
1593A LEU* 3.6 4.1 - - - +
1594A CYS* 2.9 31.4 + - - +
1628A ASP* 5.2 15.9 - - + +
1629A ILE* 6.0 4.3 - - + -
1664A ILE* 6.2 4.7 - - + -
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Residues in contact with MET1591 (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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1587A GLU 2.9 20.5 + - - +
1588A SER* 3.5 7.6 - - - +
1589A ILE 3.3 0.2 - - - -
1590A VAL* 1.3 77.0 - - - +
1592A ASP* 1.3 56.8 + - - +
1594A CYS* 4.2 3.3 - - - +
1595A GLN* 2.9 33.1 + - - +
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Residues in contact with ASP1592 (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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1588A SER 2.9 14.7 + - - +
1589A ILE* 3.6 11.7 - - - +
1590A VAL 3.3 0.2 - - - -
1591A MET* 1.3 76.8 - - - +
1593A LEU* 1.3 57.0 + - + +
1595A GLN* 3.3 5.3 + - - +
1596A VAL* 3.0 31.5 + - - +
1733A ILE* 4.8 18.2 - - + -
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Residues in contact with LEU1593 (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 2.9 15.5 + - - +
1590A VAL* 3.6 4.7 - - - +
1592A ASP* 1.3 74.0 - - + +
1594A CYS* 1.3 56.9 + - - +
1596A VAL* 4.4 8.1 - - - +
1597A PHE* 4.9 7.9 + - - +
1726A ILE* 6.5 0.7 - - + -
1729A ALA* 6.6 0.2 - - + -
1730A MET* 6.5 1.1 - - + -
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Residues in contact with CYS1594 (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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1590A VAL 2.9 17.8 + - - +
1591A MET* 4.2 3.6 - - - +
1592A ASP 3.2 0.2 - - - -
1593A LEU* 1.3 76.3 - - - +
1595A GLN* 1.3 64.6 + - - +
1596A VAL 3.3 1.3 - - - -
1597A PHE* 3.6 18.6 + - - +
1598A ASP 4.4 0.3 + - - -
1609A VAL* 4.7 18.7 - - + +
1611A LYS* 5.8 7.9 - - + +
1629A ILE* 5.1 14.6 - - + -
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Residues in contact with GLN1595 (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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1591A MET 2.9 19.7 + - - +
1592A ASP* 3.9 4.9 - - - +
1594A CYS* 1.3 74.1 - - - +
1596A VAL* 1.3 64.0 + - - +
1597A PHE 3.2 0.7 - - - -
1598A ASP* 3.3 20.5 + - - +
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Residues in contact with VAL1596 (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 ASP 3.0 18.2 + - - +
1593A LEU* 4.6 5.6 - - - -
1594A CYS 3.3 0.8 - - - +
1595A GLN* 1.3 77.0 - - - +
1597A PHE* 1.3 56.3 + - - +
1598A ASP* 3.2 4.4 + - - +
1599A GLN* 3.9 12.1 + - - +
1729A ALA* 4.5 22.2 - - + +
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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