Contacts of the helix formed by residues 1136 - 1145 (chain C) in PDB entry 1AWV
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 MET1136 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1095C PRO* 4.4 7.9 - - + -
1096C GLY* 3.7 34.5 - - - +
1114C ILE* 4.8 0.4 - - + -
1115C CYS 4.3 1.1 - - - +
1116C THR* 4.0 20.9 - - + -
1132C VAL* 4.0 20.0 - - + +
1134C GLU* 3.6 2.0 - - - -
1135C GLY* 1.3 78.0 - - - +
1137C ASN* 1.3 53.7 + - - +
1139C VAL* 3.0 37.1 + - + -
1140C GLU* 2.7 65.9 + - + +
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Residues in contact with ASN1137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1135C GLY* 3.5 17.0 + - - -
1136C MET* 1.3 80.3 + - - +
1138C ILE* 1.3 86.4 + - - +
1140C GLU* 3.7 13.4 + - - +
1141C ALA* 3.0 26.9 + - - +
1144C ARG* 4.8 2.1 + - - -
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Residues in contact with ILE1138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1010C ILE* 4.2 14.6 - - + -
1017C LEU* 3.8 23.0 - - + +
1018C GLY* 3.6 39.5 - - - +
1019C ARG 3.2 23.8 - - - +
1020C VAL* 4.8 2.0 - - + -
1135C GLY* 2.7 15.1 + - - +
1137C ASN* 1.3 102.0 - - - +
1139C VAL* 1.3 59.3 + - - +
1141C ALA* 3.6 5.7 + - + +
1142C MET* 3.0 28.6 + - + +
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Residues in contact with VAL1139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1020C VAL* 3.8 23.3 - - + -
1062C CYS* 4.0 17.7 - - - -
1114C ILE* 4.3 19.7 - - + -
1116C THR* 4.3 5.2 - - + -
1132C VAL* 4.6 4.3 - - + -
1135C GLY 3.7 12.3 - - - +
1136C MET* 3.0 32.2 + - + -
1138C ILE* 1.3 72.4 - - - +
1140C GLU* 1.3 51.0 + - - +
1141C ALA 3.0 4.0 - - - -
1142C MET* 2.6 47.5 + - + +
1143C GLU* 2.7 16.9 + - - +
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Residues in contact with GLU1140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1095C PRO* 5.3 5.6 - - + +
1116C THR* 5.5 2.9 - - + -
1136C MET* 2.7 50.5 + - + +
1137C ASN* 3.7 13.8 - - - +
1139C VAL* 1.3 72.1 - - - +
1141C ALA* 1.3 50.3 + - - +
1143C GLU* 3.8 18.8 - - - +
1144C ARG* 2.8 47.9 + - - +
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Residues in contact with ALA1141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1017C LEU* 4.3 14.4 - - + -
1137C ASN 3.0 20.9 + - - +
1138C ILE* 3.8 8.5 - - + +
1139C VAL 3.0 0.6 - - - -
1140C GLU* 1.3 75.2 - - - +
1142C MET* 1.3 60.1 + - - +
1144C ARG* 3.6 27.8 + - - +
1145C PHE* 3.0 33.2 - - + -
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Residues in contact with MET1142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1010C ILE* 3.4 50.7 - - + -
1017C LEU* 4.0 6.5 - - + -
1020C VAL* 4.9 3.6 - - + -
1053C PHE* 4.6 17.9 - - + -
1056C ILE* 3.8 14.1 - - + +
1062C CYS* 4.5 7.9 - - - -
1114C ILE* 5.1 2.7 - - + -
1138C ILE* 3.0 16.3 + - + +
1139C VAL* 2.6 54.6 + - + +
1141C ALA* 1.3 72.5 - - - +
1143C GLU* 1.3 56.5 + - - +
1144C ARG 3.2 1.3 - - - -
1145C PHE* 2.9 33.7 + - - +
1156C ILE* 3.4 20.4 - - + -
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Residues in contact with GLU1143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1056C ILE* 3.6 12.3 - - + +
1057C ILE 4.1 2.1 - - - +
1058C PRO* 3.1 41.6 - - + +
1059C GLY* 2.6 23.6 + - - -
1060C PHE 3.8 0.2 + - - -
1061C MET* 5.3 0.3 - - - -
1062C CYS* 4.1 10.7 - - - -
1116C THR* 2.6 39.1 + - + +
1139C VAL 2.7 16.4 + - - +
1140C GLU* 3.8 20.2 - - - +
1142C MET* 1.3 68.2 - - - +
1144C ARG* 1.3 56.6 + - + +
1145C PHE 2.7 16.7 + - - -
1146C GLY 3.1 4.2 + - - -
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Residues in contact with ARG1144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1058C PRO* 5.1 3.6 - - - -
1137C ASN 4.8 2.0 + - - -
1140C GLU* 2.8 32.9 + - - +
1141C ALA* 3.6 28.9 + - - +
1142C MET 3.2 1.0 - - - -
1143C GLU* 1.3 78.0 - - + +
1145C PHE* 1.3 75.1 + - + +
1146C GLY 3.8 1.3 - - - -
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Residues in contact with PHE1145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1012C VAL* 3.7 25.1 - - + -
1017C LEU* 4.6 9.6 - - + -
1056C ILE* 4.9 0.4 - - - -
1141C ALA* 3.0 24.7 - - + -
1142C MET* 3.0 13.5 - - - +
1143C GLU 2.7 1.4 + - - -
1144C ARG* 1.3 102.1 - - + +
1146C GLY* 1.3 61.2 + - - +
1152C THR* 4.0 4.0 - - - -
1153C SER* 2.9 36.9 + - - +
1154C LYS* 3.7 38.4 + - + -
1156C ILE* 3.7 30.1 - - + -
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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