Contacts of the helix formed by residues 1151 - 1165 (chain B) in PDB entry 1AIS
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 ILE1151 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1108B ASN* 3.9 41.5 - - + +
1111B PHE* 4.7 8.5 - - + -
1112B ALA* 4.0 6.3 - - + +
1115B GLU* 3.3 22.7 - - - +
1137B TYR* 3.2 29.6 - - - +
1145B LEU* 4.3 14.6 - - + -
1149B ARG 4.6 1.3 - - - +
1150B SER* 1.3 74.1 + - - +
1152B GLU* 1.3 58.4 + - - +
1154B VAL* 4.4 1.8 - - - +
1155B MET* 4.0 16.1 + - - +
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Residues in contact with GLU1152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1115B GLU* 3.7 23.9 + - + +
1119B ILE* 5.8 0.7 - - - +
1150B SER* 3.1 9.4 + - - +
1151B ILE* 1.3 78.8 - - - +
1153B SER* 1.3 67.6 + - - +
1155B MET* 3.9 2.2 + - - +
1156B ALA* 3.5 18.7 + - - +
1179B ALA* 3.1 40.6 - - - +
1180B ARG 4.1 2.6 - - - +
1181B VAL* 3.5 31.0 - - - +
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Residues in contact with SER1153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1149B ARG* 5.2 2.2 - - - -
1150B SER* 3.2 28.1 + - - -
1152B GLU* 1.3 83.7 + - - +
1154B VAL* 1.3 65.7 + - - +
1156B ALA* 3.5 4.3 + - - +
1157B ALA* 3.1 16.8 + - - +
1185B GLU* 3.3 33.8 - - - +
1186B ILE* 4.7 6.6 - - - +
1189B SER* 3.2 25.3 + - - -
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Residues in contact with VAL1154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1137B TYR* 3.5 22.0 - - + -
1140B ALA* 4.8 0.2 - - + -
1145B LEU* 3.4 43.1 - - + -
1149B ARG* 4.0 29.4 - - + +
1150B SER 3.3 16.6 + - - +
1151B ILE 4.4 0.4 + - - +
1153B SER* 1.3 76.1 - - - +
1155B MET* 1.3 55.8 + - - +
1157B ALA* 3.1 9.0 - - + +
1158B CYS* 2.8 33.6 + - - -
1189B SER* 4.4 3.4 - - - -
1193B ILE* 4.4 11.9 - - + -
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Residues in contact with MET1155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1112B ALA* 3.8 33.0 - - + +
1113B LEU* 4.4 2.9 - - + +
1115B GLU* 4.8 4.9 - - + +
1116B LEU* 3.7 36.3 - - + +
1119B ILE* 3.9 19.3 - - + -
1133B ALA* 4.1 5.8 - - - +
1134B ALA* 4.5 3.1 - - + -
1137B TYR* 3.5 38.3 - - + -
1151B ILE 4.0 16.1 + - - +
1152B GLU 3.9 3.4 + - - +
1153B SER 3.4 0.6 - - - -
1154B VAL* 1.3 74.5 - - - +
1156B ALA* 1.3 62.3 + - - +
1157B ALA 3.1 1.3 - - - -
1158B CYS* 3.3 13.2 + - - +
1159B VAL* 3.0 34.7 + - - +
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Residues in contact with ALA1156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1119B ILE* 4.3 7.3 - - + +
1152B GLU* 3.5 28.1 + - - +
1153B SER 4.0 3.4 - - - +
1154B VAL 3.4 0.4 - - - -
1155B MET* 1.3 76.1 - - - +
1157B ALA* 1.3 63.9 + - - +
1159B VAL* 3.3 22.3 - - - +
1160B TYR* 3.4 9.4 + - - +
1172B LEU* 5.7 0.2 - - - +
1175B ILE* 3.6 18.3 - - + +
1179B ALA* 4.2 11.0 - - + -
1186B ILE* 4.5 19.3 - - + +
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Residues in contact with ALA1157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1153B SER 3.1 14.7 + - - +
1154B VAL* 3.1 13.7 - - - +
1156B ALA* 1.3 76.1 - - - +
1158B CYS* 1.3 60.8 + - - +
1160B TYR* 2.9 24.5 + - - +
1161B ALA* 2.9 14.7 + - - +
1186B ILE* 4.4 5.1 - - - +
1189B SER* 3.7 16.8 - - - +
1190B TYR* 3.7 28.4 - - + +
1193B ILE* 4.3 6.7 - - + -
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Residues in contact with CYS1158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1133B ALA* 3.6 17.5 - - - +
1136B LEU* 3.8 11.7 - - + +
1137B TYR* 3.7 31.0 - - - -
1154B VAL* 2.8 27.3 + - - +
1155B MET* 3.3 11.8 + - - +
1157B ALA* 1.3 74.9 - - - +
1159B VAL* 1.3 52.7 + - - +
1161B ALA* 3.2 4.2 + - - +
1162B ALA* 2.7 37.7 + - - +
1193B ILE* 3.3 29.2 - - - -
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Residues in contact with VAL1159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116B LEU* 4.6 5.2 - - + -
1119B ILE* 3.8 35.2 - - + -
1123B LEU* 4.8 1.1 - - + -
1125B LEU* 4.3 12.8 - - + -
1129B VAL* 4.7 0.4 - - - +
1133B ALA* 3.8 18.4 - - + -
1155B MET* 3.0 18.8 + - - +
1156B ALA* 3.3 16.2 - - - +
1158B CYS* 1.3 74.9 - - - +
1160B TYR* 1.3 59.0 + - - +
1162B ALA* 3.6 7.7 - - - +
1163B CYS* 3.0 35.7 + - - -
1175B ILE* 3.6 26.2 - - + -
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Residues in contact with TYR1160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A GLU* 4.3 5.2 + - - -
132A GLU* 2.8 26.3 + - - +
1156B ALA 3.6 9.6 - - - +
1157B ALA* 2.9 11.6 + - - +
1159B VAL* 1.3 81.8 - - - +
1161B ALA* 1.3 56.6 + - - +
1163B CYS* 3.3 5.6 + - + +
1164B ARG* 3.0 57.7 + - + +
1170B ARG* 3.6 26.2 - - + -
1172B LEU* 3.8 41.1 - - + +
1175B ILE* 3.6 13.9 - - + -
1186B ILE* 5.9 0.4 - - + -
1190B TYR* 3.7 48.5 - + + -
1211B TYR* 6.0 0.7 - - - -
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Residues in contact with ALA1161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1136B LEU* 3.9 15.0 - - + -
1157B ALA 2.9 8.6 + - - +
1158B CYS* 3.7 7.6 - - - +
1160B TYR* 1.3 74.6 - - - +
1162B ALA* 1.3 60.1 + - - +
1164B ARG* 3.7 5.4 - - - +
1165B LEU* 2.8 37.1 + - - +
1190B TYR* 3.7 25.5 - - + -
1193B ILE* 5.6 3.6 - - + -
1199B LEU* 4.2 17.3 - - + -
1204B LEU* 4.2 2.0 - - + -
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Residues in contact with ALA1162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1129B VAL* 3.6 29.6 - - + +
1132B GLU* 3.9 16.6 - - + -
1133B ALA 3.9 12.3 - - - +
1136B LEU* 4.1 1.3 - - + +
1158B CYS 2.7 21.0 + - - +
1159B VAL* 3.6 9.2 - - - +
1160B TYR 3.2 0.2 - - - -
1161B ALA* 1.3 71.5 - - - +
1163B CYS* 1.3 59.2 + - - +
1165B LEU* 3.3 1.4 + - - -
1166B LEU* 3.0 35.7 + - - +
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Residues in contact with CYS1163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1125B LEU* 3.9 7.9 - - - -
1129B VAL* 3.8 20.9 - - - -
1159B VAL 3.0 25.1 + - - +
1160B TYR* 3.6 6.1 - - + +
1162B ALA* 1.3 76.7 - - - +
1164B ARG* 1.3 57.3 + - + +
1167B LYS* 3.0 6.4 + - - -
1168B VAL* 2.8 55.3 + - - +
1169B PRO* 5.1 0.4 - - - +
1170B ARG* 3.7 38.1 - - + +
1175B ILE* 4.9 1.1 - - - -
1206B VAL* 5.5 0.7 - - - +
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Residues in contact with ARG1164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A TYR 5.3 1.8 + - - -
130A GLU* 2.8 34.1 + - - -
1160B TYR* 3.0 52.6 + - + +
1161B ALA 3.7 5.2 - - - +
1162B ALA 3.1 0.2 - - - -
1163B CYS* 1.3 76.9 - - + +
1165B LEU* 1.3 63.6 + - - +
1167B LYS* 3.0 33.1 + - - +
1190B TYR* 3.0 34.8 + - - -
1201B PRO* 5.4 0.6 + - - +
1203B LYS 4.3 1.6 - - - -
1204B LEU* 2.7 44.5 + - + +
1205B PHE* 4.3 4.8 - - - +
1206B VAL* 3.6 23.6 - - + +
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Residues in contact with LEU1165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132B GLU* 3.9 24.0 - - + +
1135B ARG* 5.4 1.1 - - - +
1136B LEU* 4.3 17.3 - - + -
1161B ALA 2.8 25.1 + - - +
1162B ALA 3.3 3.6 + - - +
1164B ARG* 1.3 76.7 - - - +
1166B LEU* 1.3 62.8 + - + +
1167B LYS* 3.7 11.8 + - - +
1199B LEU* 4.2 27.4 - - + -
1203B LYS* 3.7 36.0 - - + +
1204B LEU* 3.9 14.6 - - + -
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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