Contacts of the helix formed by residues 1135 - 1150 (chain F) in PDB entry 2BT4
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 VAL1135 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1020F LEU* 4.6 4.0 - - + -
1028F TYR 4.3 16.8 + - - +
1029F GLY* 6.1 0.2 - - - -
1031F ASP* 4.1 22.4 - - + +
1036F VAL* 3.6 28.7 - - + -
1039F LEU* 3.4 28.8 - - + +
1107F ILE* 4.3 14.6 - - + -
1134F GLY* 1.3 68.8 - - - -
1136F GLN* 1.3 65.5 + - - +
1137F GLY 3.0 2.2 - - - -
1138F TYR* 3.0 28.2 + - + +
1139F VAL 4.0 0.5 + - - -
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Residues in contact with GLN1136 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1039F LEU* 4.9 2.0 - - - -
1133F CYS 3.3 10.5 - - - +
1134F GLY 3.1 0.4 - - - -
1135F VAL* 1.3 81.2 - - - +
1137F GLY* 1.3 63.2 + - - +
1139F VAL* 2.8 28.7 + - + +
1140F PHE* 3.1 37.8 + - + -
1543H GLU* 3.4 21.6 + - - +
1544H ARG* 2.9 36.0 + - - +
1547H ALA* 3.3 15.1 - - - +
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Residues in contact with GLY1137 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1105F VAL* 3.5 19.8 - - - +
1130F VAL* 3.7 25.6 - - - +
1133F CYS* 3.3 5.2 + - - +
1134F GLY 3.1 11.6 + - - -
1135F VAL 3.0 2.4 - - - -
1136F GLN* 1.3 80.8 - - - +
1138F TYR* 1.3 55.2 + - - +
1140F PHE* 3.3 9.3 + - - +
1141F GLY 3.0 21.7 + - - -
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Residues in contact with TYR1138 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1011F ILE* 4.1 15.9 - - + -
1013F ASN* 2.7 29.8 + - - -
1017F LEU* 4.2 3.1 - - - +
1033F LEU* 4.8 2.6 - - - +
1036F VAL* 3.7 30.7 - - + -
1039F LEU* 5.8 1.3 - - + -
1040F CYS* 3.8 22.9 - - - -
1077F VAL* 4.6 10.9 - - + +
1079F ASN* 3.1 32.1 + - + +
1105F VAL* 4.0 17.7 - - + -
1107F ILE* 3.8 29.0 - - + +
1135F VAL* 3.0 22.6 + - - +
1137F GLY* 1.3 77.8 - - - +
1139F VAL* 1.3 60.3 + - + +
1141F GLY* 3.1 2.0 + - - +
1142F VAL* 2.9 32.7 + - - +
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Residues in contact with VAL1139 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1039F LEU* 4.3 42.8 - - + +
1043F ALA* 4.0 18.8 - - + -
1136F GLN* 2.8 27.9 + - + +
1138F TYR* 1.3 74.9 - - + +
1140F PHE* 1.3 68.5 + - + +
1142F VAL* 3.3 2.7 + - - +
1143F GLU* 2.9 44.4 + - - +
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Residues in contact with PHE1140 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1103F VAL* 5.3 0.2 - - - -
1130F VAL* 4.1 18.4 - - + -
1133F CYS* 3.9 27.6 - - + -
1136F GLN* 3.1 47.6 + - + -
1137F GLY* 3.6 13.2 - - - +
1139F VAL* 1.3 76.2 - - + +
1141F GLY* 1.3 57.8 + - - +
1143F GLU* 3.1 4.6 + - - -
1144F ARG* 2.8 29.0 + - - +
1530H VAL* 4.9 1.8 - - + -
1540H PHE* 3.4 60.2 - + + -
1543H GLU* 3.3 29.4 - - + -
1544H ARG* 3.9 7.2 - - + -
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Residues in contact with GLY1141 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1077F VAL* 3.7 16.8 - - - -
1103F VAL* 3.9 26.0 - - - +
1130F VAL* 5.0 0.2 - - - +
1137F GLY 3.0 14.1 + - - -
1138F TYR 3.1 4.4 + - - -
1140F PHE* 1.3 77.5 - - - +
1142F VAL* 1.3 61.8 + - - +
1144F ARG* 3.3 1.9 + - - +
1145F ILE* 3.1 26.2 + - - +
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Residues in contact with VAL1142 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1004F LEU* 5.8 0.7 - - + -
1009F ILE* 3.8 17.3 - - + +
1011F ILE* 3.8 28.0 - - + -
1040F CYS* 4.4 15.5 - - + +
1043F ALA* 3.9 11.9 - - + +
1044F ALA* 3.7 32.5 - - - +
1047F HIS* 5.1 2.5 - - + -
1051F VAL* 4.8 0.4 - - + -
1077F VAL* 4.4 6.7 - - + -
1138F TYR 2.9 19.2 + - - +
1139F VAL 3.3 4.0 + - - +
1141F GLY* 1.3 75.5 - - - +
1143F GLU* 1.3 63.7 + - - +
1145F ILE* 3.3 5.4 + - - +
1146F ALA* 2.9 23.0 + - + +
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Residues in contact with GLU1143 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1043F ALA* 5.5 1.7 - - + +
1047F HIS* 3.8 28.0 + - + +
1139F VAL* 2.9 40.3 + - + +
1140F PHE* 3.6 5.4 - - - +
1142F VAL* 1.3 75.5 - - + +
1144F ARG* 1.3 62.9 + - - +
1146F ALA* 3.4 7.2 + - - +
1147F ALA 3.1 17.7 + - - -
1536H GLN* 3.4 14.2 + - - +
1540H PHE* 3.3 19.0 - - + -
1543H GLU* 2.5 36.8 - - - +
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Residues in contact with ARG1144 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1103F VAL* 3.7 24.0 - - + -
1127F ASP* 6.3 1.7 - - + +
1128F GLY* 5.8 0.9 - - - -
1140F PHE 2.8 16.9 + - - +
1141F GLY 3.7 4.5 - - - +
1143F GLU* 1.3 74.3 - - - +
1145F ILE* 1.3 65.4 + - - +
1147F ALA* 3.1 11.0 + - - +
1148F LEU* 3.0 55.6 + - + +
1532H GLY 4.4 4.8 + - - +
1533H CYS* 3.2 50.3 + - - +
1534H GLY* 3.7 7.9 - - - +
1536H GLN* 2.6 40.0 + - - +
1540H PHE* 3.8 7.1 - - + -
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Residues in contact with ILE1145 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1004F LEU* 4.1 7.6 - - + -
1009F ILE* 4.0 28.7 - - + -
1074F CYS* 4.1 18.8 - - - +
1075F GLY* 4.1 4.3 - - - -
1076F ILE 3.8 15.3 - - - +
1077F VAL* 3.9 14.6 - - + -
1101F PRO* 3.7 33.4 - - + +
1103F VAL* 3.9 16.4 - - + -
1141F GLY 3.1 15.2 + - - +
1142F VAL 3.3 4.7 + - - +
1144F ARG* 1.3 75.8 - - - +
1146F ALA* 1.3 58.3 + - - +
1148F LEU* 3.9 4.9 - - + +
1149F ALA* 2.7 30.4 + - + +
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Residues in contact with ALA1146 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1004F LEU* 3.8 30.3 - - + +
1047F HIS* 4.0 26.0 - - + +
1142F VAL* 2.9 17.4 + - + +
1143F GLU 3.5 6.1 - - - +
1145F ILE* 1.3 77.1 - - - +
1147F ALA* 1.3 62.0 + - - +
1149F ALA* 4.2 0.7 - - - +
1150F GLY* 3.4 17.5 + - - -
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Residues in contact with ALA1147 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1143F GLU 3.1 7.8 + - - +
1144F ARG* 3.1 11.9 + - - +
1146F ALA* 1.3 82.1 - - - +
1148F LEU* 1.3 58.2 + - - +
1150F GLY* 3.2 18.8 + - - +
1536H GLN* 3.3 31.4 - - - +
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Residues in contact with LEU1148 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1101F PRO* 3.8 31.9 - - + +
1103F VAL* 5.8 1.1 - - + -
1127F ASP* 4.9 15.3 - - + -
1144F ARG* 3.0 61.8 + - + +
1145F ILE* 3.9 2.5 - - + +
1147F ALA* 1.3 75.3 - - - +
1149F ALA* 1.3 63.1 + - - +
1150F GLY 2.9 12.7 + - - +
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Residues in contact with ALA1149 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1002F ARG 4.1 22.0 - - - +
1003F SER* 4.3 9.6 - - - -
1004F LEU* 3.5 28.0 - - + +
1074F CYS* 4.5 7.9 - - + +
1101F PRO* 4.7 4.7 - - + +
1145F ILE* 2.7 24.4 + - + +
1146F ALA 4.5 0.2 - - - +
1148F LEU* 1.3 77.7 - - - +
1150F GLY* 1.3 56.3 + - - +
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Residues in contact with GLY1150 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1146F ALA 3.4 15.0 + - - -
1147F ALA 3.2 15.8 - - - +
1148F LEU* 2.9 9.1 - - - +
1149F ALA* 1.3 80.9 - - - +
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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