Contacts of the helix formed by residues 1188 - 1205 (chain A) in PDB entry 2H7C
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 ASN1188 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1176A GLY 4.0 3.6 + - - -
1177A PHE* 3.9 17.8 + - - +
1187A GLY* 1.3 71.7 - - - +
1189A TRP* 1.3 65.3 + - - +
1190A GLY 3.1 2.7 - - - -
1191A HIS* 3.0 21.3 + - + -
1192A LEU* 3.1 15.4 + - + +
1320A GLY 4.1 1.4 + - - +
1321A THR* 3.2 12.7 - - - +
1322A VAL* 2.7 49.6 + - - +
1324A ASP* 3.3 26.4 + - - +
1327A LEU* 3.8 21.4 - - + +
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Residues in contact with TRP1189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1065A PHE* 3.2 37.7 - + - +
1066A THR* 3.5 27.8 - - - -
1067A PRO* 3.7 16.2 - - + -
1171A ARG* 3.8 19.4 + - - +
1175A TRP 3.5 22.0 - - - +
1176A GLY* 2.8 14.8 + - - +
1177A PHE 4.1 0.9 - - - -
1178A PHE 3.1 23.6 + - - -
1184A HIS 5.7 0.2 - - - -
1185A SER* 3.6 15.3 + - - -
1186A ARG* 3.7 15.3 - - + -
1187A GLY* 3.2 31.5 - - - -
1188A ASN* 1.3 72.8 - - - +
1190A GLY* 1.3 56.7 + - - +
1192A LEU* 3.2 16.5 + - + +
1193A ASP* 3.0 33.7 + - - +
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Residues in contact with GLY1190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1170A TYR* 3.3 8.3 - - - +
1171A ARG 3.5 24.2 - - - -
1176A GLY* 2.9 11.1 + - - -
1177A PHE* 3.8 10.5 - - - -
1188A ASN 3.1 0.4 - - - -
1189A TRP* 1.3 76.0 - - - +
1191A HIS* 1.3 61.2 + - - +
1193A ASP* 3.4 8.8 + - - -
1194A GLN* 3.1 27.0 + - - +
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Residues in contact with HIS1191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1144A LEU* 4.5 2.7 - - + -
1177A PHE* 3.6 26.6 - + - -
1188A ASN* 3.0 15.9 + - - +
1190A GLY* 1.3 74.3 - - - +
1192A LEU* 1.3 61.5 + - - +
1194A GLN* 3.0 29.0 + - - +
1195A VAL* 2.9 31.8 + - - +
1225A GLU* 3.7 10.1 - - - -
1226A SER* 3.5 25.7 - - - -
1229A VAL* 4.6 6.7 - - + +
1230A LEU* 4.6 2.7 - - + +
1321A THR* 2.7 32.3 + - + +
1327A LEU* 3.4 37.5 - - + -
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Residues in contact with LEU1192 (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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1067A PRO* 4.0 30.3 - - + -
1068A PRO* 3.6 15.5 - - + +
1187A GLY 4.7 4.0 - - - +
1188A ASN* 3.1 16.1 + - + +
1189A TRP* 3.6 26.0 - - + +
1191A HIS* 1.3 76.8 - - - +
1193A ASP* 1.3 57.4 + - - +
1195A VAL* 3.3 10.1 + - + +
1196A ALA* 2.9 27.4 + - - +
1235A LEU* 3.7 29.8 - - + -
1324A ASP* 5.4 4.0 - - - +
1326A MET* 5.5 4.0 - - + -
1327A LEU* 4.7 13.2 - - + +
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Residues in contact with ASP1193 (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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1055A PHE* 3.3 13.4 - - + -
1068A PRO* 3.2 18.5 - - - +
1117A LEU* 3.5 18.0 - - + +
1170A TYR* 3.9 11.4 - - + -
1171A ARG* 2.9 62.8 + - - +
1189A TRP 3.0 15.4 + - - +
1190A GLY* 3.4 7.6 - - - +
1192A LEU* 1.3 74.3 - - - +
1194A GLN* 1.3 59.6 + - - +
1196A ALA* 3.1 1.6 + - - -
1197A ALA* 2.9 25.3 + - - +
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Residues in contact with GLN1194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1139A ILE* 3.4 19.2 - - + +
1168A ILE* 4.0 21.6 - - + +
1170A TYR* 3.5 34.1 - - + -
1190A GLY 3.1 13.4 + - - +
1191A HIS* 3.0 30.5 + - - +
1193A ASP* 1.3 75.9 - - - +
1195A VAL* 1.3 61.4 + - - +
1197A ALA* 3.3 3.6 + - - +
1198A LEU* 3.1 27.4 + - - +
1226A SER* 3.0 32.4 + - - -
1230A LEU* 4.4 19.3 - - + +
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Residues in contact with VAL1195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191A HIS 2.9 16.6 + - - +
1192A LEU* 3.5 14.1 - - + +
1193A ASP 3.2 0.2 - - - -
1194A GLN* 1.3 78.3 - - - +
1196A ALA* 1.3 61.6 + - - +
1198A LEU* 3.2 10.0 + - - +
1199A ARG* 3.0 33.0 + - + +
1230A LEU* 3.7 22.9 - - + -
1235A LEU* 3.9 28.5 - - + +
1236A ALA* 4.4 10.1 - - + -
1239A LEU* 3.9 9.2 - - + -
1327A LEU* 4.4 13.0 - - + -
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Residues in contact with ALA1196 (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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1055A PHE* 4.0 19.9 - - + +
1056A ALA* 5.1 1.1 - - + -
1068A PRO* 3.7 22.7 - - + +
1192A LEU 2.9 14.1 + - - +
1193A ASP 3.1 7.8 + - - +
1195A VAL* 1.3 77.9 - - - +
1197A ALA* 1.3 58.2 + - - +
1199A ARG* 3.2 12.8 + - - +
1200A TRP* 2.9 26.7 + - - +
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Residues in contact with ALA1197 (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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1055A PHE* 3.7 29.6 - - + -
1119A LEU* 4.4 2.2 - - + +
1168A ILE* 3.9 33.2 - - + -
1193A ASP 2.9 13.1 + - - +
1194A GLN 3.6 8.3 - - - +
1196A ALA* 1.3 76.2 - - - +
1198A LEU* 1.3 59.1 + - - +
1200A TRP* 3.2 5.4 + - - +
1201A VAL* 3.0 31.6 + - - +
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Residues in contact with LEU1198 (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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1137A VAL* 4.0 27.8 - - + -
1139A ILE* 6.2 1.3 - - + -
1168A ILE* 5.8 1.6 - - + -
1194A GLN 3.1 18.3 + - - +
1195A VAL* 3.6 11.2 - - - +
1196A ALA 3.2 0.2 - - - -
1197A ALA* 1.3 74.0 - - + +
1199A ARG* 1.3 66.7 + - - +
1201A VAL* 3.2 6.0 + - + +
1202A GLN* 3.0 25.6 + - - +
1215A VAL* 4.6 2.7 - - + -
1217A ILE* 3.6 33.9 - - + -
1230A LEU* 4.1 19.5 - - + -
1236A ALA* 5.0 4.0 - - + -
1239A LEU* 4.0 35.6 - - + +
1240A PHE* 4.3 9.2 - - + -
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Residues in contact with ARG1199 (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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1195A VAL* 3.0 27.6 + - - +
1196A ALA* 3.5 12.3 - - - +
1198A LEU* 1.3 76.5 - - - +
1200A TRP* 1.3 63.3 + - - +
1202A GLN* 3.3 3.6 + - - +
1203A ASP* 3.1 33.4 + - - +
1235A LEU 4.4 11.9 + - - -
1237A LYS 5.7 1.2 + - - -
1239A LEU* 3.7 35.1 - - + +
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Residues in contact with TRP1200 (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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1028A THR* 4.5 9.3 - - + -
1030A HIS* 4.6 18.2 - + - -
1053A ILE* 3.7 24.9 - - + +
1054A PRO 3.9 9.6 + - - -
1055A PHE* 3.8 30.5 - - + +
1074A TRP* 6.0 2.5 - + - -
1119A LEU* 3.7 20.4 - - + -
1121A ILE* 3.8 23.1 - - + -
1196A ALA 2.9 13.0 + - - +
1197A ALA 3.3 9.2 - - - +
1198A LEU 3.1 0.2 - - - -
1199A ARG* 1.3 77.8 - - - +
1201A VAL* 1.3 69.2 + - + +
1203A ASP* 3.2 3.2 + - - -
1204A ASN* 2.9 73.3 + - + +
1205A ILE* 4.8 4.9 - - + -
1208A PHE* 3.7 21.8 - + - -
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Residues in contact with VAL1201 (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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1119A LEU* 4.8 1.3 - - + -
1135A VAL* 4.2 7.9 - - + -
1137A VAL* 4.2 21.5 - - + -
1166A VAL* 4.3 18.8 - - + -
1197A ALA* 3.0 20.9 + - + +
1198A LEU* 3.5 11.4 - - + +
1200A TRP* 1.3 91.2 - - + +
1202A GLN* 1.3 59.5 + - - +
1205A ILE* 2.9 59.5 + - + +
1215A VAL* 4.1 22.7 - - + -
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Residues in contact with GLN1202 (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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1198A LEU 3.0 16.9 + - - +
1199A ARG* 3.5 10.8 - - - +
1200A TRP 3.2 0.2 - - - -
1201A VAL* 1.3 79.2 - - - +
1203A ASP* 1.3 66.4 + - - +
1205A ILE 4.7 0.9 + - - -
1206A ALA* 5.6 0.7 + - - +
1212A PRO* 2.7 54.3 + - - +
1215A VAL* 3.5 19.4 - - - +
1238A ASN 4.3 10.0 - - - +
1239A LEU* 3.7 31.3 + - + -
1241A HIS* 4.2 5.1 - - - -
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Residues in contact with ASP1203 (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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1029A VAL* 3.8 18.9 - - + +
1199A ARG* 3.1 23.5 + - - +
1200A TRP* 3.2 1.9 + - - -
1202A GLN* 1.3 84.6 - - - +
1204A ASN* 1.3 72.1 + - - +
1206A ALA* 5.6 0.6 - - - +
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Residues in contact with ASN1204 (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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1028A THR* 3.4 9.8 - - - -
1029A VAL* 2.9 39.5 + - - +
1030A HIS* 4.7 2.3 + - - -
1200A TRP* 2.9 71.8 + - + +
1203A ASP* 1.3 90.4 - - - +
1205A ILE* 1.3 66.1 + - - +
1206A ALA* 3.2 4.0 - - - -
1207A SER* 3.0 25.4 + - - -
1208A PHE* 3.6 5.4 - - + -
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Residues in contact with ILE1205 (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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1121A ILE* 4.3 17.3 - - + -
1135A VAL* 3.7 21.8 - - + -
1164A VAL* 4.1 12.6 - - + -
1166A VAL* 4.0 25.8 - - + -
1200A TRP* 4.8 4.3 - - + -
1201A VAL* 2.9 39.9 + - + +
1202A GLN 4.7 0.4 + - - -
1204A ASN* 1.3 72.4 - - - +
1206A ALA* 1.3 65.3 + - - +
1208A PHE* 2.9 17.9 + - + -
1210A GLY* 3.0 24.9 + - - +
1211A ASN 4.1 1.1 - - - -
1212A PRO* 3.7 33.0 - - + -
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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
------------------------------------------------------------
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