Contacts of the helix formed by residues 1523 - 1543 (chain A) in PDB entry 6AH0
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 ARG1523 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1520A ASN* 2.1 29.6 + - - +
1521A ALA 3.4 0.4 - - - -
1522A GLN* 1.3 65.2 - - - +
1524A SER* 1.3 60.2 + - - +
1525A GLY 3.1 0.4 - - - -
1526A LEU* 3.0 3.8 + - - -
1527A ASN* 2.8 24.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER1524 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1253A SER 4.8 12.8 - - - -
1520A ASN 4.2 1.2 + - - -
1521A ALA 5.2 0.4 + - - -
1523A ARG* 1.3 73.1 - - - +
1525A GLY* 1.3 56.8 + - - +
1527A ASN* 3.7 4.5 - - - +
1528A GLN* 3.0 27.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY1525 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1521A ALA 4.4 12.8 + - - -
1522A GLN* 4.1 3.6 - - - -
1523A ARG 3.1 4.0 - - - +
1524A SER* 1.3 77.0 - - - +
1526A LEU* 1.3 55.0 + - - +
1528A GLN* 4.5 2.4 + - - -
1529A ILE* 4.8 3.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1526 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1522A GLN 3.5 11.0 + - - -
1523A ARG 3.0 6.0 + - - -
1525A GLY* 1.3 76.8 - - - +
1527A ASN* 1.3 58.8 - - - +
1528A GLN 3.2 2.2 - - - -
1529A ILE* 3.0 20.5 + - - +
1530A PRO 4.4 1.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1527 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1255A THR* 4.9 15.4 - - - +
1523A ARG 2.8 15.6 + - - -
1524A SER* 3.3 4.0 + - - +
1526A LEU* 1.3 78.3 - - - +
1528A GLN* 1.3 59.9 + - - +
1529A ILE 3.2 0.9 + - - -
1530A PRO* 3.7 8.7 - - - +
1531A ASN 4.1 3.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN1528 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1524A SER 3.0 15.1 + - - -
1525A GLY 5.1 2.0 - - - -
1526A LEU 3.2 0.6 - - - -
1527A ASN* 1.3 75.5 - - - +
1529A ILE* 1.3 58.5 + - - +
1530A PRO 3.4 0.2 - - - -
1531A ASN* 3.1 5.6 + - - +
1532A ARG* 2.8 26.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1529 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1525A GLY 4.8 2.2 + - - -
1526A LEU* 3.0 16.5 + - - +
1528A GLN* 1.3 77.9 - - - +
1530A PRO* 1.3 56.2 - - - +
1532A ARG* 3.2 3.3 + - - +
1533A ARG* 3.0 24.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO1530 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1506A ALA* 5.6 9.2 - - - -
1526A LEU 4.4 1.6 - - - -
1527A ASN 3.7 6.6 - - - +
1528A GLN 3.4 0.2 - - - -
1529A ILE* 1.3 74.9 - - - +
1531A ASN* 1.3 61.0 + - - +
1533A ARG* 3.5 2.8 + - - -
1534A PHE* 3.2 17.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1531 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1256A PHE 6.3 0.7 - - - +
1527A ASN 4.1 3.6 + - - -
1528A GLN* 3.1 10.6 + - - +
1530A PRO* 1.3 75.1 - - - +
1532A ARG* 1.3 62.1 + - - +
1534A PHE* 3.2 3.5 + - - +
1535A THR* 3.2 18.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1532 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1528A GLN 2.8 17.7 + - - -
1529A ILE* 3.2 5.8 + - - +
1531A ASN* 1.3 72.3 - - - +
1533A ARG* 1.3 59.8 + - - +
1535A THR* 3.4 10.3 + - - +
1536A LEU* 3.5 8.3 + - - -
1568A THR* 6.3 5.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1533 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1529A ILE 3.0 13.7 + - - -
1530A PRO* 3.5 3.8 + - - -
1532A ARG* 1.3 73.2 - - - +
1534A PHE* 1.3 65.4 + - - +
1536A LEU* 3.3 10.7 + - - +
1537A TRP* 3.6 7.6 + - - -
1750A GLY 4.1 20.6 - - - -
1751A LEU* 5.2 7.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1534 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1323A GLY 5.5 6.2 - - - +
1530A PRO 3.2 14.3 + - - -
1531A ASN* 3.2 5.5 + - - +
1533A ARG* 1.3 75.4 - - - +
1535A THR* 1.3 63.2 + - - +
1537A TRP* 3.4 10.4 + - - +
1538A TRP* 3.4 10.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR1535 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1531A ASN 3.2 12.6 + - - -
1532A ARG* 3.4 5.8 + - - +
1533A ARG 3.2 0.6 - - - -
1534A PHE* 1.3 77.0 - - - +
1536A LEU* 1.3 55.6 + - - +
1538A TRP 3.4 1.7 + - - -
1539A SER* 2.7 33.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1536 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1489A LEU* 4.1 7.6 - - - -
1532A ARG 3.5 8.1 + - - -
1533A ARG* 3.3 7.8 + - - +
1534A PHE 3.3 1.0 - - - -
1535A THR* 1.3 78.6 - - - +
1537A TRP* 1.3 61.3 + - - +
1539A SER* 3.5 7.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1537 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1487A HIS 2.9 1.0 - - - +
1488A THR* 2.5 16.9 - - - +
1489A LEU* 2.3 39.3 + - - +
1533A ARG 3.6 6.8 + - - -
1534A PHE* 3.4 6.7 + - - +
1535A THR 3.3 1.0 - - - -
1536A LEU* 1.3 76.4 - - - +
1538A TRP* 1.3 55.5 + - - +
1539A SER 3.8 0.3 + - - -
1540A PRO 5.1 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1538 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1487A HIS 3.2 11.7 - - - -
1534A PHE 3.4 9.0 + - - -
1535A THR* 3.4 5.3 + - - +
1536A LEU 3.3 0.4 - - - -
1537A TRP* 1.3 74.0 - - - +
1539A SER* 1.3 52.8 + - - +
1540A PRO 3.3 2.7 - - - -
1541A THR* 3.0 5.3 + - - +
1542A ILE* 2.5 34.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER1539 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1535A THR 2.7 20.3 + - - -
1536A LEU* 3.5 5.5 + - - +
1537A TRP 3.5 3.0 - - - -
1538A TRP* 1.3 70.5 - - - +
1540A PRO* 1.3 57.2 - - - +
1542A ILE* 3.9 3.4 - - - +
1543A ASN* 2.2 40.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO1540 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1487A HIS 5.0 1.8 - - - +
1536A LEU 5.1 0.6 - - - -
1537A TRP 5.1 0.6 - - - -
1538A TRP 3.3 0.8 - - - -
1539A SER* 1.3 79.7 - - - +
1541A THR* 1.3 59.9 + - - +
1543A ASN 2.8 21.1 - - - +
1544A ARG* 4.5 2.8 - - - -
1669A GLY 5.5 1.6 - - - +
1670A ASP* 4.8 5.2 - - - -
1671A TYR* 3.8 24.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR1541 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1486A GLU 5.6 1.0 + - - -
1487A HIS* 4.5 13.4 + - - +
1538A TRP 3.0 8.0 + - - -
1540A PRO* 1.3 77.7 - - - +
1542A ILE* 1.3 61.8 + - - +
1543A ASN* 4.5 1.6 - - - -
1544A ARG* 5.0 0.5 + - - -
1547A VAL* 5.7 4.5 - - - -
1671A TYR* 5.4 2.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1542 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1538A TRP 2.5 19.2 + - - -
1539A SER* 3.3 4.9 - - - +
1541A THR* 1.3 74.6 - - - +
1543A ASN* 1.3 55.6 + - - +
1544A ARG 4.2 1.0 + - - -
1547A VAL* 4.6 9.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1543 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1539A SER* 2.2 26.0 + - - +
1540A PRO* 2.8 25.9 - - - +
1541A THR 4.6 0.4 - - - -
1542A ILE* 1.3 69.7 - - - +
1544A ARG* 1.3 57.4 + - - +
1547A VAL 5.1 1.1 - - - -
1562A MET* 6.0 2.0 - - - +
1563A HIS* 5.0 14.6 - - - +
1670A ASP* 4.9 4.5 - - - -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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