Contacts of the helix formed by residues 1182 - 1196 (chain A) in PDB entry 4Z4Q
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 ASN1182 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1095A ARG* 3.6 7.7 - - - +
1181A HIS* 1.3 73.0 - - - +
1183A LEU* 1.3 59.0 + - - +
1184A ALA* 3.3 13.9 + - - +
1185A GLU* 3.0 48.7 + - - +
1186A VAL* 3.0 28.5 + - - +
1211A PRO 5.2 0.2 - - - -
1212A ASP* 3.1 34.6 + - + +
1476A THR 2.9 25.4 + - - +
1477A PRO 3.6 11.3 + - - -
1478A ARG* 3.8 3.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1095A ARG* 5.6 1.4 - - - +
1096A GLU* 4.1 19.0 + - - +
1126A ILE* 4.6 6.7 - - + -
1159A PHE* 3.6 45.3 - - + -
1160A PRO* 4.7 0.4 - - + -
1164A VAL* 3.9 20.1 - - + +
1181A HIS 3.6 3.4 + - - -
1182A ASN* 1.3 69.6 + - - +
1184A ALA* 1.3 69.7 + - - +
1186A VAL* 3.3 1.1 + - - +
1187A ILE* 3.0 43.3 + - + +
1470A VAL* 4.2 9.2 - - + +
1471A LYS* 3.9 17.9 - - - -
1474A PHE* 4.5 21.8 - - + +
1475A ALA* 4.8 1.1 - - - +
1476A THR 5.6 0.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182A ASN* 3.3 10.5 + - - +
1183A LEU* 1.3 80.8 - - - +
1185A GLU* 1.3 60.1 + - + +
1187A ILE* 3.4 1.4 + - - +
1188A ASP* 2.9 37.1 + - - +
1471A LYS* 3.9 28.9 - - - -
1475A ALA* 4.1 22.1 - - + +
1476A THR 5.2 2.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1185 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182A ASN* 3.0 30.5 + - - +
1184A ALA* 1.3 76.3 - - + +
1186A VAL* 1.3 66.2 + - - +
1188A ASP* 3.2 8.7 + - - +
1189A ALA* 3.0 20.6 + - - +
1207A PHE 3.2 24.0 - - - +
1208A LEU* 4.2 11.1 - - + +
1209A PRO* 3.6 17.3 - - + +
1210A GLY 3.9 4.7 - - - +
1478A ARG* 2.6 49.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1186 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1160A PRO* 3.1 36.8 - - + +
1163A LEU* 4.0 30.3 - - + -
1164A VAL* 4.3 10.5 - - + -
1181A HIS* 3.6 26.9 - - + -
1182A ASN 3.0 19.3 + - - +
1183A LEU 3.9 2.9 - - - +
1185A GLU* 1.3 74.4 - - - +
1187A ILE* 1.3 64.5 + - - +
1189A ALA* 3.1 6.7 + - - +
1190A ALA* 2.9 19.2 + - - +
1208A LEU* 4.5 11.2 - - + -
1346A LEU* 4.4 6.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1160A PRO* 4.0 20.9 - - + -
1183A LEU* 3.0 44.1 + - + +
1184A ALA 3.9 2.7 - - - +
1186A VAL* 1.3 75.3 - - - +
1188A ASP* 1.3 58.2 + - - +
1190A ALA* 3.1 6.3 + - - +
1191A VAL* 2.8 34.5 + - + +
1467A LEU* 3.5 54.5 - - + +
1468A ARG* 4.6 1.1 - - + +
1470A VAL* 3.8 14.4 - - + -
1471A LYS* 3.9 16.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1188 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1184A ALA* 2.9 24.3 + - - +
1185A GLU* 3.5 8.6 - - - +
1187A ILE* 1.3 75.4 - - - +
1189A ALA* 1.3 63.9 + - - +
1191A VAL* 3.3 5.7 + - - +
1192A TYR* 3.1 22.5 + - - +
1207A PHE* 3.9 28.7 - - + +
1471A LYS* 2.9 38.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1189 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1185A GLU 3.0 11.7 + - - +
1186A VAL* 3.1 9.4 + - - +
1188A ASP* 1.3 74.8 - - - +
1190A ALA* 1.3 63.6 + - - +
1192A TYR* 3.1 4.3 + - - +
1193A MET* 3.0 22.9 + - - +
1204A LEU* 4.0 13.5 - - + +
1207A PHE* 3.7 14.5 - - + +
1208A LEU* 4.2 22.7 - - + -
1346A LEU* 3.8 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1190 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1160A PRO* 5.4 3.1 - - + -
1186A VAL 2.9 13.1 + - - +
1187A ILE* 3.1 10.3 + - - +
1189A ALA* 1.3 76.0 - - - +
1191A VAL* 1.3 59.5 + - - +
1193A MET* 3.3 6.1 + - - -
1194A ILE* 2.8 34.5 + - - +
1346A LEU* 4.4 17.2 - - + +
1349A TYR* 4.9 9.0 - - + -
1350A ILE* 3.6 13.7 - - + +
1467A LEU* 4.5 15.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1187A ILE* 2.8 26.3 + - + +
1188A ASP* 3.9 5.8 - - - +
1190A ALA* 1.3 77.5 - - - +
1192A TYR* 1.3 63.1 + - - +
1194A ILE* 3.3 15.5 + - - +
1195A ASP* 3.3 15.7 + - - +
1464A LYS* 3.6 25.5 - - + +
1467A LEU* 4.1 26.9 - - + -
1468A ARG* 3.7 31.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1188A ASP 3.1 13.7 + - - +
1189A ALA 3.1 8.0 + - - +
1191A VAL* 1.3 76.2 - - - +
1193A MET* 1.3 59.5 + - - +
1195A ASP* 3.1 3.5 + - - -
1196A HIS* 2.9 82.5 + + + +
1199A ALA* 3.9 19.7 - - + -
1203A LYS* 3.6 43.4 - - + +
1204A LEU* 4.5 6.1 - - + -
1207A PHE* 3.6 31.9 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET1193 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1189A ALA 3.0 15.3 + - - +
1190A ALA* 3.6 5.8 - - - +
1192A TYR* 1.3 77.5 - - - +
1194A ILE* 1.3 67.8 + - - +
1196A HIS 3.1 15.8 + - - +
1197A PRO* 3.2 34.1 - - + +
1199A ALA* 5.4 3.1 - - - +
1204A LEU* 4.4 19.7 - - + -
1343A VAL* 3.4 22.2 - - + +
1346A LEU* 3.8 20.4 - - - -
1347A SER* 3.4 41.7 - - - +
1350A ILE* 3.8 11.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1194 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1190A ALA 2.8 26.3 + - - +
1191A VAL* 3.3 4.9 + - - +
1193A MET* 1.3 75.1 - - - +
1195A ASP* 1.3 61.4 + - - +
1196A HIS 3.6 0.2 + - - -
1197A PRO* 4.0 10.7 - - - +
1350A ILE* 3.4 24.7 - - + -
1460A TYR* 3.7 34.2 - - + +
1463A MET* 3.4 36.6 - - + -
1464A LYS* 3.3 33.9 - - + -
1467A LEU* 3.8 15.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1195 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191A VAL* 3.3 9.7 + - - +
1192A TYR* 3.1 9.3 + - - +
1193A MET 3.1 0.4 - - - -
1194A ILE* 1.3 80.8 - - - +
1196A HIS* 1.3 79.0 + - + +
1197A PRO* 3.7 5.0 - - - +
1464A LYS* 3.2 40.3 + - - +
1468A ARG* 4.8 2.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1196 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1192A TYR* 2.9 72.5 + + + +
1193A MET* 3.2 7.5 - - - +
1195A ASP* 1.3 95.7 + - + +
1197A PRO* 1.3 67.9 - - - +
1198A THR* 3.0 5.9 + - - +
1199A ALA* 3.1 18.3 + - + +
----------------------------------------------------------
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