Contacts of the strand formed by residues 1145 - 1151 (chain A) in PDB entry 4FNW
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 LEU1145 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1134A GLN* 3.1 4.8 - - - -
1135A VAL* 2.8 47.2 + - + +
1143A SER 3.9 0.2 + - - -
1144A PRO* 1.3 72.3 - - - +
1146A GLN* 1.3 71.2 + - - +
1147A VAL* 3.7 5.9 + - + +
1183A ILE* 3.9 35.7 - - + -
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Residues in contact with GLN1146 (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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1119A ILE* 4.1 11.7 - - - +
1132A GLU* 2.7 28.4 + - - +
1133A GLY 3.3 17.0 + - - +
1134A GLN* 3.9 17.9 + - - +
1144A PRO* 3.6 7.0 + - - +
1145A LEU* 1.3 79.6 - - - +
1147A VAL* 1.3 62.7 + - - +
1183A ILE* 5.5 1.4 - - - +
1197A GLU* 5.5 0.2 - - - -
1198A LEU* 3.4 37.2 + - + +
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Residues in contact with VAL1147 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1116A ILE* 5.6 0.7 - - + -
1132A GLU* 3.5 5.5 - - - +
1133A GLY 2.8 49.0 + - - +
1134A GLN* 4.1 0.7 - - - +
1135A VAL* 4.0 25.1 - - + -
1145A LEU* 4.0 13.2 - - + +
1146A GLN* 1.3 79.9 - - - +
1148A ALA* 1.3 60.1 + - - +
1149A VAL* 3.8 18.8 - - + -
1183A ILE* 4.0 29.4 - - + -
1195A LEU* 4.4 5.8 - - + -
1196A LEU 3.5 10.8 - - - +
1198A LEU* 3.7 12.5 - - - +
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Residues in contact with ALA1148 (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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1122A LEU* 5.0 1.8 - - + -
1130A VAL* 4.2 14.8 - - + -
1131A TYR 3.3 7.9 - - - +
1147A VAL* 1.3 74.7 - - - +
1149A VAL* 1.3 62.1 + - - +
1150A LYS 4.1 0.4 - - - -
1194A ILE 3.8 0.9 - - - +
1195A LEU* 3.5 3.1 - - - -
1196A LEU* 2.7 48.6 + - + +
1197A GLU 4.0 11.9 - - - +
1198A LEU* 3.9 14.2 - - + +
1199A MET 5.1 1.3 - - - +
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Residues in contact with VAL1149 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1116A ILE* 4.5 4.5 - - + -
1118A LEU* 3.7 28.5 - - + -
1129A GLU 3.7 1.0 - - - +
1130A VAL* 3.2 6.6 - - - -
1131A TYR* 2.6 41.2 + - + +
1133A GLY* 4.1 10.3 - - - -
1147A VAL* 3.8 13.5 - - + -
1148A ALA* 1.3 75.2 - - - +
1150A LYS* 1.3 61.0 + - - +
1151A THR* 3.9 3.3 + - + -
1193A PHE* 3.5 46.2 - - + -
1194A ILE 3.6 2.7 - - - -
1195A LEU* 3.8 16.8 - - + -
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Residues in contact with LYS1150 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1128A GLY* 5.5 8.0 - - - +
1129A GLU 3.6 7.9 - - - +
1130A VAL* 4.5 17.7 - - + +
1148A ALA 4.1 1.4 + - - -
1149A VAL* 1.3 72.6 - - - +
1151A THR* 1.3 65.2 + - - +
1164A PHE* 3.6 17.9 - - + -
1167A GLU* 3.3 40.1 + - - +
1193A PHE* 3.3 5.4 - - - -
1194A ILE* 2.9 44.4 + - + +
1196A LEU* 4.6 19.2 - - + +
1270A ASP* 5.6 4.9 - - - -
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Residues in contact with THR1151 (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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1118A LEU* 5.4 0.2 - - + -
1128A GLY* 3.7 19.2 - - - -
1129A GLU* 2.9 33.5 + - - +
1131A TYR* 3.8 31.4 - - + -
1149A VAL* 4.1 3.6 - - + -
1150A LYS* 1.3 81.2 + - - +
1152A LEU* 1.3 64.7 + - - +
1153A PRO* 3.8 1.0 - - - +
1164A PHE* 3.8 8.1 - - - -
1191A PRO* 4.8 7.6 - - + -
1192A ARG 3.4 6.3 - - - -
1193A PHE* 3.6 26.9 - - + -
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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