Contacts of the strand formed by residues 1157 - 1164 (chain A) in PDB entry 4IGI
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 ALA1157 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1113A LEU* 4.8 1.5 - - + +
1117A LEU* 3.8 23.0 - - + +
1131A GLN* 3.8 8.7 - - - +
1133A LEU* 4.8 4.9 - - + -
1152A LEU* 3.0 41.8 + - + +
1153A LYS* 4.1 4.3 - - - +
1155A GLY 3.5 2.0 + - - -
1156A GLY* 1.3 80.5 - - - +
1158A VAL* 1.3 60.4 + - - +
1159A PRO* 3.4 12.3 - - + +
1177A PHE* 3.7 13.0 - - - -
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Residues in contact with VAL1158 (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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1131A GLN 2.8 19.8 + - - +
1132A LEU* 3.5 11.3 - - + +
1133A LEU 3.0 19.8 + - - -
1156A GLY 4.1 7.2 - - - +
1157A ALA* 1.3 77.4 - - - +
1159A PRO* 1.3 59.3 - - - +
1160A ILE* 4.5 3.7 - - + +
1177A PHE* 3.8 30.3 - - + -
1181A PHE* 4.3 3.8 - - + -
1205A LEU* 4.0 26.2 - - + -
1210A LEU* 3.8 33.2 - - + -
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Residues in contact with PRO1159 (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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1133A LEU* 3.1 20.4 - - + +
1135A VAL* 4.8 0.7 - - + -
1152A LEU* 4.3 25.6 - - + -
1153A LYS* 4.9 4.7 - - + -
1157A ALA* 3.4 12.1 - - + +
1158A VAL* 1.3 91.4 - - - +
1160A ILE* 1.3 63.9 + - - +
1175A ILE* 3.3 34.3 - - + +
1176A SER* 3.3 3.0 - - - -
1177A PHE* 2.9 40.7 + - + +
1181A PHE* 4.0 2.4 - - - -
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Residues in contact with ILE1160 (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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1132A LEU* 5.5 5.6 - - + -
1133A LEU 2.8 10.0 + - - +
1134A ILE* 3.5 22.6 - - + +
1135A VAL* 2.9 26.1 + - - +
1158A VAL 4.5 5.2 - - - +
1159A PRO* 1.3 79.0 - - - +
1161A GLY* 1.3 59.2 + - - +
1162A ILE* 3.7 8.4 + - + -
1176A SER* 4.0 2.7 - - - -
1181A PHE* 3.5 36.3 - - + +
1183A VAL* 5.2 0.2 - - + -
1198A ILE* 3.8 25.6 - - + +
1201A ARG* 3.7 27.4 - - + -
1202A VAL* 4.8 10.3 - - + -
1205A LEU* 4.4 9.9 - - + -
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Residues in contact with GLY1161 (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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1135A VAL* 3.8 9.9 - - - -
1159A PRO 4.1 0.2 - - - -
1160A ILE* 1.3 72.1 - - - +
1162A ILE* 1.3 62.4 + - - +
1172A MET* 3.9 21.7 - - - +
1175A ILE* 4.9 5.6 - - - +
1176A SER* 2.9 19.9 + - - +
1182A ALA* 3.2 7.4 - - - +
1183A VAL 3.0 25.8 + - - +
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Residues in contact with ILE1162 (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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1047A PHE* 4.0 9.9 - - + -
1134A ILE* 3.8 25.8 - - + -
1135A VAL 2.8 15.6 + - - +
1136A LEU* 3.5 26.8 - - + -
1137A THR 3.2 24.6 + - - +
1160A ILE* 4.3 5.8 - - + +
1161A GLY* 1.3 75.0 - - - +
1163A GLY* 1.3 62.5 + - - +
1164A ILE* 3.9 7.1 + - + +
1172A MET* 3.8 3.5 - - - +
1183A VAL* 3.6 13.0 - - + +
1185A ILE* 4.8 1.6 - - + -
1191A LEU* 4.2 6.3 - - + -
1194A ILE* 3.7 19.7 - - + -
1198A ILE* 3.8 32.8 - - + -
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Residues in contact with GLY1163 (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 THR 3.6 0.9 - - - -
1162A ILE* 1.3 71.5 - - - +
1164A ILE* 1.3 61.3 + - - -
1165A GLY 5.4 0.2 - - - -
1167A ALA* 3.4 22.7 - - - -
1172A MET* 3.7 14.2 - - - +
1183A VAL 2.9 12.6 + - - +
1184A ALA* 3.4 6.8 - - - +
1185A ILE* 2.9 28.6 + - - +
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Residues in contact with ILE1164 (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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1044A LEU* 4.5 3.8 - - + -
1136A LEU* 4.1 28.5 - - + -
1137A THR 2.9 17.0 + - - +
1138A ALA* 3.2 15.5 - - + -
1162A ILE* 4.5 3.1 - - + +
1163A GLY* 1.3 75.7 - - - -
1165A GLY* 1.3 72.5 + - - +
1166A ASN 3.1 1.0 + - - -
1167A ALA 3.0 11.3 + - - -
1185A ILE* 3.3 20.0 - - + +
1187A THR* 3.7 7.2 - - - +
1188A PHE* 3.6 66.9 - - + +
1191A LEU* 4.2 9.4 - - + -
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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