Contacts of the strand formed by residues 183 - 190 (chain B) in PDB entry 2QG0
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 GLY 183 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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93B ASP* 3.4 9.6 - - - -
95B GLY 3.4 17.9 - - - -
97B GLY* 3.9 3.4 - - - -
152B THR* 2.9 7.0 + - - -
153B LYS 2.9 34.7 + - - +
180B MET* 4.3 6.3 - - - +
182B ARG* 1.3 78.8 - - - +
184B THR* 1.3 64.0 + - - -
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Residues in contact with THR 184 (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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91B ILE 3.8 0.9 - - - +
92B VAL* 3.3 2.1 - - - +
93B ASP* 2.9 39.6 + - - +
97B GLY* 3.6 10.9 + - - -
98B MET* 3.9 11.3 - - + +
150B VAL* 3.8 25.8 - - + -
151B ILE 3.5 4.5 - - - +
152B THR* 3.2 14.7 + - - +
180B MET* 4.4 2.5 - - - -
183B GLY* 1.3 72.7 - - - -
185B LYS* 1.3 64.9 + - - +
186B VAL* 4.2 10.5 - - + -
2002B A94 3.6 34.7 + - + +
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Residues in contact with LYS 185 (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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81B ILE* 6.3 0.4 - - + -
90B THR* 3.3 29.4 - - + -
91B ILE 3.4 4.5 - - - -
92B VAL* 3.7 13.9 - - + -
149B THR 3.6 1.7 - - - +
150B VAL* 3.4 5.2 - - - +
151B ILE* 2.7 62.6 + - + +
159B GLN* 5.8 0.2 - - - +
178B GLU* 4.5 24.2 + - - +
180B MET* 3.9 20.8 - - + +
184B THR* 1.3 76.1 - - - +
186B VAL* 1.3 60.1 + - - +
187B ILE* 3.8 15.9 - - + -
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Residues in contact with VAL 186 (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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48B LEU* 4.2 19.7 - - + -
52B SER* 6.1 0.4 - - - +
89B LEU 3.6 1.2 - - - +
90B THR* 3.3 3.0 - - - -
91B ILE* 2.7 49.1 + - + +
138B PHE* 4.4 20.0 - - + -
141B ALA* 5.2 0.2 - - + -
148B VAL* 3.9 16.2 - - + -
149B THR 3.7 2.7 - - - +
150B VAL* 4.5 4.9 - - + -
184B THR* 4.2 16.8 - - + -
185B LYS* 1.3 73.9 - - - +
187B ILE* 1.3 61.0 + - - +
188B LEU* 3.6 24.4 + - + -
2002B A94 5.1 8.1 - - - +
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Residues in contact with ILE 187 (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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88B THR* 4.2 15.3 - - + -
90B THR* 3.6 20.6 - - + +
148B VAL* 3.5 6.4 - - - +
149B THR* 2.8 50.0 + - + +
151B ILE* 4.1 22.4 - - + -
185B LYS* 3.8 26.2 - - + +
186B VAL* 1.3 70.1 - - - +
188B LEU* 1.3 63.2 + - - +
189B HIS* 3.6 22.3 - - + +
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Residues in contact with LEU 188 (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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44B PHE* 3.3 40.2 - - + -
48B LEU* 4.0 1.8 - - + -
88B THR* 3.1 9.6 - - - -
89B LEU* 2.8 42.9 + - + +
91B ILE* 3.8 19.7 - - + -
141B ALA* 3.6 29.6 - - + -
144B VAL* 4.5 5.4 - - + -
145B ALA* 4.2 6.7 - - + -
147B LYS 4.2 2.0 - - - -
148B VAL* 4.1 9.9 - - + -
186B VAL* 3.9 17.0 - - + +
187B ILE* 1.3 70.3 - - - +
189B HIS* 1.3 61.6 + - - +
190B LEU* 3.2 14.8 + - + +
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Residues in contact with HIS 189 (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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86B ASP 5.3 1.2 + - - +
87B ARG 4.0 6.5 - - - -
88B THR* 3.9 12.6 - - + +
145B ALA* 3.3 2.3 - - - +
146B GLU* 2.9 32.9 + - + +
147B LYS* 3.0 61.0 + - + +
149B THR* 2.9 26.4 + - - -
163B GLU* 4.9 0.7 - - - -
187B ILE* 3.6 25.5 - - + +
188B LEU* 1.3 69.0 - - - +
190B LEU* 1.3 62.7 + - - +
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Residues in contact with LEU 190 (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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87B ARG* 3.1 36.1 + - + +
89B LEU* 4.4 8.1 - - + +
144B VAL* 3.5 35.2 - - + +
146B GLU* 3.9 5.9 - - - +
188B LEU* 3.2 23.7 + - + +
189B HIS* 1.3 74.5 - - - +
191B LYS* 1.3 70.9 + - - +
194B GLN 3.6 21.3 - - - +
195B THR* 4.3 0.7 - - - -
197B TYR* 4.4 11.4 - - + -
198B LEU* 3.4 43.3 - - + -
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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