Contacts of the helix formed by residues 182 - 196 (chain A) in PDB entry 5A91
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 THR 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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62A ALA 3.3 14.1 + - - -
63A ASP* 3.5 26.8 + - - +
64A GLU 3.4 10.5 - - - +
65A ARG* 4.0 7.4 - - + +
159A THR* 3.6 16.5 + - + +
181A THR* 1.3 82.5 + - - +
183A PRO* 1.3 71.0 - - - +
184A LEU* 4.4 0.9 - - - +
185A ALA* 3.0 24.1 + - - +
186A MET* 3.0 24.1 + - - +
264A TYR* 4.5 1.8 - - - -
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Residues in contact with PRO 183 (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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45A GLY 3.8 12.1 - - - -
46A VAL 4.0 2.2 - - - +
47A ALA* 3.5 22.4 - - + +
61A ARG 3.7 9.9 - - - +
62A ALA* 3.4 17.9 - - - +
64A GLU 3.1 15.9 - - - +
66A PHE* 3.8 24.2 - - + -
182A THR* 1.3 83.0 - - - +
184A LEU* 1.3 56.9 + - - +
186A MET 3.4 0.2 + - - -
187A ALA* 2.9 30.5 + - - +
262A VAL* 3.7 21.2 - - + +
264A TYR* 4.1 7.2 - - + -
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Residues in contact with LEU 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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47A ALA* 3.7 8.6 - - + +
49A ILE* 4.9 6.1 - - + -
56A GLN* 4.0 24.2 - - - +
59A LEU* 4.1 24.7 - - + -
62A ALA* 2.9 26.8 + - + +
63A ASP* 3.8 19.7 - - - +
182A THR* 4.4 0.4 - - - +
183A PRO* 1.3 73.1 - - - +
185A ALA* 1.3 67.7 + - - +
187A ALA* 3.2 0.3 + - - -
188A GLN* 2.9 59.0 + - + +
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Residues in contact with ALA 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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157A ASP* 3.9 10.5 - - - +
159A THR* 3.5 31.2 - - - +
181A THR* 3.7 7.9 - - - +
182A THR* 3.0 20.1 + - - +
184A LEU* 1.3 78.1 - - - +
186A MET* 1.3 57.4 + - - +
188A GLN* 3.4 12.9 + - - +
189A THR* 3.0 33.6 + - - -
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Residues in contact with MET 186 (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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68A MET* 3.6 26.7 - - - -
71A THR* 3.9 21.3 - - - +
72A SER* 4.7 0.4 - - - -
74A VAL* 5.8 3.6 - - + -
75A MET* 4.3 19.5 - - + -
157A ASP* 4.8 2.0 - - - +
160A PHE* 4.4 9.2 - - + -
181A THR* 3.8 12.9 + - + -
182A THR 3.0 16.2 + - - +
183A PRO 3.9 2.9 - - - +
185A ALA* 1.3 74.8 - - - +
187A ALA* 1.3 61.0 + - - +
189A THR* 3.8 3.3 - - - +
190A LEU* 2.8 34.0 + - - +
193A LEU* 6.4 1.1 - - - -
247A ILE* 4.0 28.0 - - + -
262A VAL* 3.9 5.6 - - + -
264A TYR* 3.6 23.6 - - - +
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Residues in contact with ALA 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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47A ALA* 3.9 21.3 - - + +
49A ILE* 3.7 18.7 - - + +
183A PRO 2.9 18.1 + - - +
184A LEU* 3.2 4.4 + - + +
186A MET* 1.3 77.4 - - - +
188A GLN* 1.3 62.3 + - - +
191A LYS* 2.9 25.1 + - - +
260A VAL* 3.5 15.8 - - + +
262A VAL* 3.5 15.8 - - + +
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Residues in contact with GLN 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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49A ILE* 3.9 13.9 - - + -
56A GLN* 4.6 7.8 - - - +
184A LEU* 2.9 51.7 + - + +
185A ALA* 3.7 12.2 - - - +
187A ALA* 1.3 76.1 - - - +
189A THR* 1.3 60.1 + - - +
191A LYS* 3.3 5.3 + - - +
192A ASN* 2.9 37.5 + - - +
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Residues in contact with THR 189 (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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75A MET* 3.7 27.1 - - + -
155A LEU* 4.0 27.8 + - + +
157A ASP* 2.7 38.1 + - + +
185A ALA 3.0 10.4 + - - -
186A MET* 4.1 4.5 - - - -
188A GLN* 1.3 75.9 - - - +
190A LEU* 1.3 60.7 + - - +
192A ASN* 3.2 9.6 + - + +
193A LEU* 2.8 33.5 + - + +
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Residues in contact with LEU 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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74A VAL* 4.2 24.5 - - + -
186A MET* 2.8 24.2 + - + +
187A ALA* 3.9 3.1 - - - +
189A THR* 1.3 72.3 - - - +
191A LYS* 1.3 61.9 + - - +
193A LEU* 3.3 6.0 + - + +
194A THR* 2.8 46.0 + - + +
211A LEU* 4.3 10.1 - - + -
247A ILE* 3.9 25.8 - - + +
248A ALA* 3.6 42.6 - - - +
249A VAL* 3.9 9.2 - - + -
260A VAL* 4.0 7.2 - - + -
261A LEU 4.9 0.7 - - - +
262A VAL* 5.2 1.1 - - + -
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Residues in contact with LYS 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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49A ILE* 4.1 27.4 - - + +
51A THR* 3.9 22.7 - - + -
54A ASN* 4.9 13.5 - - - +
187A ALA 2.9 17.3 + - - +
188A GLN* 3.5 6.7 - - - +
190A LEU* 1.3 76.9 - - - +
192A ASN* 1.3 71.5 + - - +
194A THR* 4.0 2.2 - - - -
195A LEU* 2.9 31.0 + - + -
196A GLY* 3.0 6.3 + - - +
260A VAL* 3.9 23.6 - - + +
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Residues in contact with ASN 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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155A LEU* 4.2 18.9 + - + +
188A GLN* 2.9 24.8 + - - +
189A THR* 3.2 11.7 + - + +
191A LYS* 1.3 84.5 + - - +
193A LEU* 1.3 59.7 + - - +
196A GLY* 3.0 32.1 + - - +
197A LYS* 4.1 29.6 + - + +
198A ALA* 3.1 21.7 + - + +
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Residues in contact with LEU 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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74A VAL* 4.0 26.2 - - + -
75A MET* 4.5 10.1 - - + -
78A ALA* 3.6 27.6 - - + -
151A PHE* 4.3 1.6 - - + -
155A LEU* 3.6 25.1 - - + -
186A MET* 6.4 0.9 - - - -
189A THR* 2.8 33.0 + - + +
190A LEU* 3.7 7.9 - - - +
191A LYS 3.2 0.2 - - - -
192A ASN* 1.3 78.7 - - - +
194A THR* 1.3 59.6 + - + +
198A ALA* 3.8 10.3 - - + -
199A LEU* 3.9 25.9 + - + +
204A ARG* 3.5 17.0 - - - +
207A LEU* 3.7 12.7 - - + +
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Residues in contact with THR 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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190A LEU* 2.8 33.0 + - + +
191A LYS* 3.8 1.6 + - - -
193A LEU* 1.3 79.8 - - - +
195A LEU* 1.3 67.6 + - - +
204A ARG* 2.8 36.1 + - - +
207A LEU* 4.0 8.3 - - + -
208A VAL* 3.5 19.2 - - + +
211A LEU* 3.5 32.5 - - + -
249A VAL* 3.2 24.0 - - + +
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Residues in contact with LEU 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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51A THR* 4.3 12.3 - - + +
191A LYS* 2.9 14.7 + - + +
194A THR* 1.3 87.8 - - - +
196A GLY* 1.3 61.3 + - - +
204A ARG* 4.4 13.5 - - - +
249A VAL* 3.9 5.4 - - + -
251A TRP* 4.1 29.8 - - + +
258A PRO* 3.8 28.9 - - + -
260A VAL* 3.9 25.8 - - + -
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Residues in contact with GLY 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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191A LYS* 3.0 11.7 + - - -
192A ASN* 3.0 19.7 + - - +
195A LEU* 1.3 81.8 - - - +
197A LYS* 1.3 60.8 + - - -
198A ALA 3.4 0.7 + - - -
199A LEU 4.4 7.1 + - - +
204A ARG* 4.4 11.6 - - - +
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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