Contacts of the helix formed by residues 183 - 200 (chain A) in PDB entry 1CG1
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 TYR 183 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A ALA* 2.5 28.5 + - - +
161A LEU* 3.9 15.9 - - + -
162A LYS* 3.3 58.0 - - + +
165A MET* 3.6 22.4 - - + -
169A ASN* 4.9 3.6 - - - +
181A VAL 3.4 4.6 + - - -
182A ASP* 1.3 78.2 + - - +
184A GLN* 1.3 80.0 + - + +
186A VAL* 3.0 3.5 + - - +
187A LEU* 2.8 55.1 + - + +
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Residues in contact with GLN 184 (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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182A ASP* 3.3 10.8 + - - +
183A TYR* 1.3 95.5 - - + +
185A LYS* 1.3 54.0 + - - +
187A LEU* 3.2 17.1 + - - +
188A ASP* 2.6 75.4 + - - +
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Residues in contact with LYS 185 (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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108A ASP* 4.9 11.5 + - - +
182A ASP* 2.7 35.6 + - + +
184A GLN* 1.3 73.4 - - - +
186A VAL* 1.3 62.9 + - + +
188A ASP* 3.9 5.8 - - + +
189A ASP* 2.6 51.6 + - - +
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Residues in contact with VAL 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A LEU* 4.1 24.5 - - + -
108A ASP* 4.3 18.2 - - + +
109A TYR* 4.7 2.0 - - + -
161A LEU* 3.8 17.0 - - + -
165A MET* 3.6 21.1 - - + -
181A VAL* 3.8 16.2 - - + -
182A ASP 3.5 11.9 - - - +
183A TYR 3.0 8.1 + - - +
185A LYS* 1.3 76.0 - - + +
187A LEU* 1.3 64.9 + - - +
189A ASP* 3.8 5.6 - - - +
190A THR* 2.8 41.8 + - - +
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Residues in contact with LEU 187 (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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154A LYS 5.3 0.2 - - - +
157A PHE* 4.2 5.4 - - + -
158A ALA* 3.8 30.3 - - + -
161A LEU* 3.9 12.8 - - + +
183A TYR* 2.8 44.7 + - + +
184A GLN* 3.5 24.2 - - - +
186A VAL* 1.3 78.4 - - - +
188A ASP* 1.3 59.0 + - - +
190A THR* 3.7 2.7 - - - -
191A MET* 2.9 58.3 + - + +
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Residues in contact with ASP 188 (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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184A GLN* 2.6 57.1 + - - +
185A LYS* 3.9 5.5 + - - +
187A LEU* 1.3 73.3 - - - +
189A ASP* 1.3 66.1 + - - +
191A MET* 3.1 6.7 + - - +
192A ALA* 3.0 23.5 + - - +
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Residues in contact with ASP 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ASP* 4.7 6.9 - - - +
185A LYS* 2.6 51.3 + - - +
186A VAL* 3.8 5.2 - - - +
188A ASP* 1.3 81.7 - - - +
190A THR* 1.3 63.7 + - - +
192A ALA* 3.4 17.7 + - - +
193A VAL* 3.8 10.6 + - - +
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Residues in contact with THR 190 (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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76A PRO* 5.0 12.0 - - + +
105A LEU* 5.1 1.8 - - + -
107A LEU* 3.6 26.2 - - + +
151A LEU* 3.8 28.3 - - + -
157A PHE* 4.0 21.7 - - + -
186A VAL* 2.8 26.4 + - - +
187A LEU 3.7 3.6 - - - -
189A ASP* 1.3 78.5 - - - +
191A MET* 1.3 59.2 + - + +
193A VAL* 3.3 10.9 + - + +
194A ALA* 3.0 23.2 + - - -
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Residues in contact with MET 191 (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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151A LEU* 4.0 13.0 - - + -
154A LYS* 3.5 48.3 + - + +
157A PHE* 3.2 44.2 - - + -
187A LEU* 2.9 35.4 + - + +
188A ASP* 3.1 6.0 + - - +
190A THR* 1.3 73.0 - - + +
192A ALA* 1.3 67.5 + - - +
193A VAL 3.1 1.0 + - - -
194A ALA* 3.4 15.2 + - - +
195A ASP* 4.7 2.4 + - - +
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Residues in contact with ALA 192 (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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188A ASP 3.0 11.6 + - - +
189A ASP* 3.5 13.9 - - - +
190A THR 3.3 0.4 - - - -
191A MET* 1.3 77.1 - - - +
193A VAL* 1.3 65.0 + - + +
195A ASP* 5.3 1.6 + - - +
196A ILE* 5.2 4.7 - - - +
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Residues in contact with VAL 193 (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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76A PRO* 3.9 17.5 - - + +
77A ALA* 6.3 0.4 - - - -
80A MET* 3.3 38.8 - - + -
189A ASP 4.1 11.2 - - - +
190A THR* 3.3 13.9 - - + +
192A ALA* 1.3 85.5 - - + +
194A ALA* 1.3 66.2 + - - +
195A ASP 3.2 2.9 - - - -
196A ILE* 2.7 24.2 + - + +
197A LEU* 3.2 26.1 + - + -
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Residues in contact with ALA 194 (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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151A LEU* 4.0 32.2 - - + +
154A LYS* 3.8 22.7 - - - -
190A THR 3.0 13.5 + - - +
191A MET* 3.4 16.5 + - - +
193A VAL* 1.3 76.4 - - - +
195A ASP* 1.3 60.4 + - - +
197A LEU* 3.1 4.3 + - - +
198A THR* 2.8 33.2 + - - +
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Residues in contact with ASP 195 (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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154A LYS* 2.5 35.6 + - - -
191A MET 4.7 2.4 + - - -
192A ALA 5.3 1.3 + - - +
193A VAL 2.9 2.6 + - - -
194A ALA* 1.3 73.1 - - - +
196A ILE* 1.3 62.0 + - + +
198A THR* 4.0 12.0 - - + +
199A SER* 3.1 23.9 + - - -
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Residues in contact with ILE 196 (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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80A MET* 3.7 33.9 - - + -
83A MET* 4.3 12.3 - - + -
94A ARG* 3.9 37.5 - - - +
192A ALA 5.2 3.6 - - - +
193A VAL* 2.7 24.0 + - + +
195A ASP* 1.3 71.1 - - + +
197A LEU* 1.3 66.9 + - - +
199A SER* 2.5 26.4 + - - +
200A MET* 3.5 17.7 + - + +
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Residues in contact with LEU 197 (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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74A LEU* 4.2 11.0 - - + -
76A PRO* 3.9 20.0 - - + -
79A LEU* 3.3 28.9 - - + -
80A MET* 3.7 20.4 - - + -
99A LEU* 3.6 29.1 - - + +
105A LEU* 5.4 0.4 - - + -
148A VAL* 5.1 6.7 - - + -
151A LEU* 4.4 17.7 - - + -
193A VAL* 3.2 24.6 + - + +
194A ALA* 3.1 9.6 + - - +
196A ILE* 1.3 77.6 - - - +
198A THR* 1.3 54.6 + - - +
200A MET* 2.9 34.9 + - - +
201A VAL 3.8 2.6 + - - -
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Residues in contact with THR 198 (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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148A VAL* 4.7 2.9 + - - +
151A LEU* 4.1 19.4 + - - +
152A PHE* 3.3 37.9 - - + -
194A ALA 2.8 18.0 + - - -
195A ASP* 4.0 13.0 - - + +
197A LEU* 1.3 76.4 - - - +
199A SER* 1.3 63.3 + - - +
200A MET 3.3 0.9 + - - -
201A VAL* 3.4 24.9 + - - +
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Residues in contact with SER 199 (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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94A ARG* 5.5 5.2 - - - +
98A LEU* 5.6 0.5 - - - +
195A ASP 3.1 18.3 + - - -
196A ILE* 2.5 24.5 + - - +
198A THR* 1.3 79.1 - - - +
200A MET* 1.3 65.0 + - - +
201A VAL 3.5 2.4 + - - +
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Residues in contact with MET 200 (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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79A LEU* 4.2 6.5 - - + -
83A MET* 4.0 17.3 - - + +
94A ARG* 4.3 24.2 - - + +
97A LEU* 3.4 45.5 - - - +
98A LEU* 3.1 15.5 - - - +
99A LEU* 2.8 50.4 + - + -
196A ILE* 3.7 34.8 - - + +
197A LEU* 2.9 9.8 + - - +
199A SER* 1.3 86.0 + - - +
201A VAL* 1.3 58.0 + - - +
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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