Contacts of the helix formed by residues 1140 - 1159 (chain A) in PDB entry 3Q71
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 PRO1140 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1097A TRP* 3.2 44.2 - - + +
1138A GLY 3.2 6.3 - - - +
1139A PHE* 1.3 84.4 - - + +
1141A LYS* 1.3 60.5 + - - +
1142A ASN* 3.5 15.5 - - - +
1143A ILE* 3.3 14.3 + - + -
1144A PHE* 2.9 26.3 + - - +
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Residues in contact with LYS1141 (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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800A AR6 4.2 3.7 + - - -
1134A THR* 3.6 33.0 - - - +
1139A PHE 4.3 1.8 - - - +
1140A PRO* 1.3 69.7 - - - +
1142A ASN* 1.3 60.8 + - - +
1144A PHE* 3.4 1.2 + - - +
1145A ALA* 2.9 30.0 + - - +
1175A ASP* 2.8 26.6 + - - -
1177A GLU* 3.0 42.6 + - + +
1178A ASN* 3.5 38.3 - - - +
1181A ALA* 3.6 10.9 - - + +
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Residues in contact with ASN1142 (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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1140A PRO* 3.5 17.7 - - - +
1141A LYS* 1.3 76.2 + - - +
1143A ILE* 1.3 78.5 + - - +
1145A ALA* 3.6 2.6 + - - +
1146A GLU* 3.4 27.0 + - - +
1181A ALA* 3.8 16.4 - - + +
1185A GLU* 5.4 0.3 - - - +
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Residues in contact with ILE1143 (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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1097A TRP* 3.9 30.1 - - + -
1105A LEU* 4.6 12.3 - - + -
1139A PHE* 5.7 0.4 - - + -
1140A PRO* 3.8 28.0 - - + +
1141A LYS 3.3 0.6 - - - -
1142A ASN* 1.3 91.1 + - - +
1144A PHE* 1.3 66.4 + - - +
1146A GLU* 3.4 19.7 - - + +
1147A LEU* 3.0 23.6 + - + +
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Residues in contact with PHE1144 (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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1108A MET* 3.9 25.1 - - + -
1112A ILE* 4.1 6.3 - - + -
1130A PRO 4.4 0.4 - - - -
1131A ALA* 3.8 19.5 - - - -
1132A ILE* 3.2 35.0 - - + -
1134A THR* 3.5 30.1 - - + -
1139A PHE* 4.3 21.3 - + + +
1140A PRO 2.9 12.3 + - - +
1141A LYS 3.9 2.2 - - - +
1142A ASN 3.4 0.2 - - - -
1143A ILE* 1.3 77.5 - - - +
1145A ALA* 1.3 64.9 + - - +
1147A LEU* 3.2 8.4 + - + +
1148A ILE* 2.9 54.5 + - + +
1182A PHE* 4.0 15.5 - + - -
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Residues in contact with ALA1145 (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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1141A LYS 2.9 18.1 + - - +
1142A ASN 3.8 4.9 - - - +
1144A PHE* 1.3 77.6 - - - +
1146A GLU* 1.3 62.4 + - - +
1148A ILE* 3.4 1.0 - - - +
1149A ILE* 3.1 32.4 + - - +
1181A ALA* 3.8 29.6 - - + +
1182A PHE* 3.9 28.7 - - + +
1185A GLU* 4.4 4.7 - - + -
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Residues in contact with GLU1146 (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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1142A ASN* 3.4 11.7 + - - +
1143A ILE* 3.4 29.8 - - + +
1145A ALA* 1.3 78.6 - - - +
1147A LEU* 1.3 60.8 + - + +
1149A ILE* 4.2 0.2 - - - +
1150A SER* 2.9 39.7 + - - +
1185A GLU* 3.6 33.3 - - - +
1188A ARG* 5.8 0.7 + - - -
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Residues in contact with LEU1147 (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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1105A LEU* 3.7 34.1 - - + +
1108A MET* 4.1 6.1 - - + -
1109A GLU* 3.6 38.2 - - + +
1112A ILE* 3.5 27.6 - - + -
1139A PHE* 4.2 21.1 - - + -
1143A ILE* 3.0 20.9 + - + +
1144A PHE* 3.4 8.5 - - + +
1146A GLU* 1.3 77.8 - - - +
1148A ILE* 1.3 65.1 + - + +
1150A SER* 3.9 3.6 - - - -
1151A GLU* 3.1 21.5 + - + +
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Residues in contact with ILE1148 (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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1112A ILE* 3.8 25.4 - - + -
1129A PHE* 3.6 43.5 - - + -
1144A PHE* 2.9 36.4 + - + +
1145A ALA 3.4 11.7 - - - +
1147A LEU* 1.3 77.6 - - - +
1149A ILE* 1.3 69.8 + - + +
1151A GLU* 3.2 3.3 + - - +
1152A VAL* 2.9 30.2 + - + +
1169A PHE* 3.7 18.6 - - + -
1182A PHE* 3.8 25.8 - - + -
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Residues in contact with ILE1149 (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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1008A LEU* 4.7 3.6 - - + -
1016A MET* 4.1 7.4 - - - -
1145A ALA 3.1 20.2 + - - +
1146A GLU* 4.2 1.8 - - - +
1148A ILE* 1.3 80.2 - - + +
1150A SER* 1.3 62.8 + - - +
1152A VAL* 3.2 4.8 + - - +
1153A PHE* 3.1 45.6 + - + -
1169A PHE* 3.8 24.7 - - + -
1182A PHE* 4.3 10.8 - - + -
1185A GLU* 3.4 29.8 - - + +
1186A PHE* 3.9 22.7 - - + +
1189A ARG* 4.1 17.0 - - + +
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Residues in contact with SER1150 (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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1146A GLU* 2.9 27.0 + - - +
1147A LEU* 3.9 4.3 - - - -
1149A ILE* 1.3 76.5 - - - +
1151A GLU* 1.3 57.7 + - - +
1153A PHE* 3.4 3.4 + - - +
1154A LYS* 2.9 29.6 + - - +
1185A GLU* 5.1 1.2 + - - -
1189A ARG* 2.9 27.6 + - - +
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Residues in contact with GLU1151 (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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1109A GLU* 3.7 41.9 - - + +
1112A ILE* 3.8 20.4 - - + -
1113A ARG* 3.3 30.7 - - - +
1116A MET* 4.2 1.8 - - + -
1147A LEU* 3.1 18.8 + - + +
1148A ILE* 3.2 4.9 + - - +
1150A SER* 1.3 73.5 - - - +
1152A VAL* 1.3 60.5 + - - +
1154A LYS* 4.0 19.8 - - - +
1155A PHE* 2.8 37.2 + - - +
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Residues in contact with VAL1152 (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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1014A LEU* 3.8 23.9 - - + +
1016A MET* 3.7 32.5 - - + -
1112A ILE* 4.8 1.6 - - + -
1116A MET* 4.0 22.7 - - + -
1129A PHE* 5.2 0.7 - - + -
1148A ILE* 2.9 24.3 + - + +
1149A ILE 3.2 6.7 + - - +
1151A GLU* 1.3 75.1 - - - +
1153A PHE* 1.3 61.7 + - - +
1155A PHE* 3.5 2.1 + - - +
1156A SER* 3.0 23.0 + - - -
1167A VAL* 4.1 14.4 - - + -
1169A PHE* 4.1 20.0 - - + -
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Residues in contact with PHE1153 (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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1008A LEU* 4.4 15.0 - - + -
1009A VAL 4.7 2.5 - - - -
1010A SER* 3.9 31.0 - - - -
1011A PRO* 4.6 8.1 - - + -
1016A MET* 3.4 25.8 - - + -
1149A ILE* 3.1 41.4 + - + -
1150A SER* 3.6 7.4 - - - +
1152A VAL* 1.3 75.7 - - - +
1154A LYS* 1.3 62.2 + - - +
1156A SER* 3.2 7.2 + - - -
1157A SER* 2.9 24.2 + - - -
1189A ARG* 3.8 42.4 - - + +
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Residues in contact with LYS1154 (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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1150A SER 2.9 17.3 + - - +
1151A GLU* 3.3 22.4 + - - +
1153A PHE* 1.3 76.7 - - - +
1155A PHE* 1.3 63.6 + - - +
1157A SER* 2.8 25.1 + - - +
1158A LYS* 3.1 43.8 + - + +
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Residues in contact with PHE1155 (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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1014A LEU* 4.5 3.4 - - + -
1113A ARG* 3.9 28.0 - - + -
1116A MET* 3.7 36.3 - - + -
1117A GLU* 3.8 37.7 - - + -
1120A GLU* 5.2 1.3 - - + -
1151A GLU* 2.8 25.9 + - - +
1152A VAL 3.7 1.8 - - - +
1154A LYS* 1.3 73.4 - - - +
1156A SER* 1.3 66.9 + - - +
1158A LYS* 3.4 2.0 + - - -
1159A ASN* 2.8 52.1 + - - +
1161A LEU* 3.7 38.8 - - + -
1164A LEU* 4.0 4.5 - - + -
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Residues in contact with SER1156 (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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1010A SER* 2.7 33.0 + - - -
1012A GLY* 3.9 16.5 + - - -
1014A LEU* 3.8 19.2 - - - +
1152A VAL* 3.0 18.3 + - - -
1153A PHE 3.6 4.3 - - - -
1155A PHE* 1.3 81.8 - - - +
1157A SER* 1.3 61.1 + - - +
1159A ASN 3.0 23.3 - - - +
1161A LEU* 4.9 5.5 - - - +
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Residues in contact with SER1157 (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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1011A PRO* 6.5 0.9 - - - -
1012A GLY* 6.1 1.6 - - - +
1153A PHE 2.9 13.2 + - - -
1154A LYS* 2.8 20.0 + - - +
1156A SER* 1.3 77.4 - - - +
1158A LYS* 1.3 65.8 + - - +
1159A ASN 3.6 0.9 + - - +
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Residues in contact with LYS1158 (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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1154A LYS* 3.1 45.2 + - + +
1155A PHE* 4.9 1.1 - - - -
1156A SER 3.3 0.4 - - - -
1157A SER* 1.3 83.8 - - - +
1159A ASN* 1.3 73.7 + - - +
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Residues in contact with ASN1159 (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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1012A GLY* 6.0 0.5 - - - -
1155A PHE* 2.8 52.4 + - + +
1156A SER* 3.0 15.9 - - - +
1157A SER 3.4 2.6 + - - +
1158A LYS* 1.3 92.2 - - - +
1160A GLN* 1.3 64.7 + - - +
1161A LEU* 3.8 24.8 + - + +
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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