Contacts of the helix formed by residues 181 - 195 (chain K) in PDB entry 1UW9
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 SER 181 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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156A GLN* 3.8 28.3 - - - -
160A ASP* 4.4 5.3 + - - -
115I GLN* 2.9 25.9 + - - +
180K LEU* 1.3 76.1 - - - +
182K ALA* 1.3 59.0 + - - +
183K LYS* 3.8 3.2 + - - +
184K ASN* 3.2 28.2 + - - +
185K TYR* 2.8 28.4 + - - +
211K PHE 3.6 10.5 - - - -
212K MET* 3.9 1.3 - - - -
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Residues in contact with ALA 182 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A GLN* 5.2 1.6 - - - +
157A VAL* 5.7 5.4 - - + -
181K SER* 1.3 73.7 - - - +
183K LYS* 1.3 62.6 + - - +
185K TYR* 3.1 5.1 + - - +
186K GLY 3.1 17.7 + - - -
211K PHE 4.5 0.6 + - - -
212K MET* 3.7 23.2 - - + +
213K ARG 5.5 0.2 - - - +
216K ASP* 3.5 31.6 - - + -
217K ARG* 3.6 15.1 - - - +
220K PHE* 3.6 19.1 - - + +
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Residues in contact with LYS 183 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A ASP* 3.5 44.5 + - + +
163A ASN* 2.9 27.3 - - - +
165A TYR* 2.7 31.5 + - - +
71I ARG* 4.9 7.6 + - - +
72I TYR* 2.6 49.2 + - + +
106I ARG* 5.9 0.4 - - - +
117I GLN* 5.0 0.6 + - - -
181K SER* 3.3 3.1 + - - +
182K ALA* 1.3 78.4 - - - +
184K ASN* 1.3 58.9 + - - +
187K ARG* 2.9 40.3 + - - +
220K PHE* 3.5 13.7 - - + -
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Residues in contact with ASN 184 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71E THR* 6.0 0.2 - - - +
74E LEU* 3.7 34.4 + - + +
110I PHE* 4.8 5.6 - - - -
115I GLN* 3.0 44.6 + - - +
116I VAL* 6.0 0.6 - - - +
180K LEU* 4.2 13.8 - - + +
181K SER* 3.2 13.1 + - - +
183K LYS* 1.3 74.8 - - - +
185K TYR* 1.3 59.9 + - - +
187K ARG* 3.0 29.7 + - - +
188K ALA* 2.9 30.3 + - - +
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Residues in contact with TYR 185 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174K ILE* 3.6 36.3 + - + +
176K PRO 5.0 2.5 - - - -
177K LYS 4.9 4.3 - - - -
180K LEU* 3.9 22.2 - - + +
181K SER 2.8 10.7 + - - +
182K ALA* 3.2 10.3 - - - +
184K ASN* 1.3 77.0 - - - +
186K GLY* 1.3 56.6 + - - +
188K ALA* 3.4 3.8 + - - +
189K VAL* 2.9 32.7 + - - +
202K ASP* 3.3 22.7 - - - -
203K ASP 3.2 26.9 + - - -
206K VAL* 3.7 14.6 - - + +
212K MET* 3.6 31.6 - - + -
217K ARG* 3.7 17.0 - - + -
221K VAL* 4.2 8.1 - - + -
238K HIS* 3.9 9.9 - - - -
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Residues in contact with GLY 186 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72I TYR* 3.1 19.9 - - - -
182K ALA 3.1 11.0 + - - -
183K LYS 3.3 0.2 + - - -
185K TYR* 1.3 73.4 - - - +
187K ARG* 1.3 60.1 + - - +
189K VAL* 4.1 6.3 - - - -
190K TYR* 2.9 27.0 + - - +
220K PHE 4.0 17.5 - - - -
221K VAL* 4.3 4.1 - - - +
224K ALA* 3.2 10.0 - - - +
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Residues in contact with ARG 187 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E TRP* 5.2 2.9 - - + -
74E LEU* 4.6 10.5 - - + -
43I GLU* 3.0 29.3 + - - -
72I TYR* 3.3 20.4 + - + -
75I MET* 3.8 28.7 - - + +
106I ARG* 5.9 0.6 - - - +
110I PHE* 3.8 30.8 - - - -
117I GLN* 4.3 7.5 + - - -
183K LYS* 2.9 48.6 + - - +
184K ASN* 3.0 31.7 + - - +
186K GLY* 1.3 74.8 - - - +
188K ALA* 1.3 65.3 + - - +
190K TYR* 3.4 4.7 + - + +
191K GLU* 3.2 31.0 + - + +
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Residues in contact with ALA 188 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E TRP* 5.2 3.4 - - + -
71E THR* 4.5 11.9 - - + -
174K ILE* 4.1 22.7 - - + -
180K LEU* 5.0 1.1 - - + -
184K ASN 2.9 16.9 + - - +
185K TYR 3.7 3.8 - - - +
187K ARG* 1.3 76.9 - - - +
189K VAL* 1.3 58.3 + - - +
191K GLU* 3.4 1.2 + - - -
192K CYS* 3.0 28.5 + - - -
407K LEU* 4.3 6.7 - - + -
413K ASN* 3.1 27.3 + - - +
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Residues in contact with VAL 189 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174K ILE* 3.8 16.6 - - + -
185K TYR* 2.9 24.6 + - + +
186K GLY* 3.6 5.8 - - - +
187K ARG 3.2 0.2 - - - -
188K ALA* 1.3 72.4 - - - +
190K TYR* 1.3 66.5 + - - +
192K CYS* 3.2 2.6 + - - +
193K LEU* 2.9 39.5 + - + +
200K THR* 3.4 16.4 - - - +
221K VAL* 4.2 14.8 - - + +
224K ALA* 3.7 13.7 - - + -
238K HIS* 3.3 33.2 - - + +
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Residues in contact with TYR 190 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72I TYR* 4.9 9.0 - + + -
73I TRP 3.6 19.3 - - - -
74I THR* 2.8 20.5 + - - -
186K GLY 2.9 20.7 + - - +
187K ARG* 3.9 4.9 - - + +
189K VAL* 1.3 72.5 - - - +
191K GLU* 1.3 88.5 + - + +
193K LEU* 4.0 0.2 - - - -
194K ARG* 3.0 44.8 + - + +
224K ALA* 3.6 20.2 - - + -
227K LYS* 3.4 37.8 - - + -
228K ALA* 3.9 16.3 - - + +
231K GLU* 2.6 29.7 + - - -
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Residues in contact with GLU 191 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E TRP* 5.8 2.0 - - + -
73I TRP 4.1 1.6 - - - +
74I THR* 3.8 0.2 - - - -
75I MET* 2.9 52.5 + - + +
187K ARG* 3.2 21.6 + - + +
188K ALA* 3.9 1.3 - - - +
190K TYR* 1.3 93.4 - - + +
192K CYS* 1.3 59.8 + - - +
194K ARG* 2.9 36.6 + - - +
195K GLY 3.7 0.2 + - - -
413K ASN* 3.6 22.0 - - + +
414K ALA* 3.1 33.5 + - - +
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Residues in contact with CYS 192 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172K CYS* 3.9 23.8 - - - -
174K ILE* 4.0 11.2 - - - -
188K ALA 3.0 23.9 + - - +
189K VAL 3.2 0.9 + - - +
191K GLU* 1.3 74.8 - - - +
193K LEU* 1.3 66.7 + - - +
195K GLY 3.4 1.9 + - - -
197K LEU* 3.6 12.5 - - + +
200K THR* 3.4 20.0 - - + -
406K THR* 3.9 6.3 - - - -
407K LEU* 4.1 2.5 - - - -
413K ASN* 3.5 28.7 - - - -
417K ALA* 3.1 24.9 - - - +
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Residues in contact with LEU 193 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189K VAL* 2.9 37.5 + - + +
192K CYS* 1.3 76.8 - - - +
194K ARG* 1.3 62.1 - - - +
195K GLY 3.2 1.0 + - - -
196K GLY 3.2 4.5 + - - -
197K LEU* 3.4 9.8 - - + +
198K ASP 3.7 11.7 - - - +
199K PHE* 3.6 31.4 - - - +
200K THR* 3.6 7.6 - - + +
224K ALA 4.4 0.4 - - - +
225K ILE* 3.9 27.1 - - + -
228K ALA* 3.5 16.2 - - + -
236K LYS* 2.8 40.9 + - + -
237K GLY 3.6 15.0 - - - +
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Residues in contact with ARG 194 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74I THR* 3.4 20.6 - - - +
75I MET 4.6 5.1 + - - -
190K TYR* 3.0 53.8 + - + +
191K GLU* 2.9 31.5 + - - +
193K LEU* 1.3 77.7 - - - +
195K GLY* 1.3 59.7 + - - +
196K GLY 3.3 0.4 + - - -
228K ALA* 3.8 6.5 - - + +
231K GLU* 3.0 29.9 + - - +
232K THR* 3.5 23.7 - - + +
414K ALA* 3.7 16.3 - - + +
3P VAL* 4.7 2.0 - - - +
4P TRP* 2.8 56.5 + - - +
6P PRO* 3.8 10.1 - - - +
17P TYR* 4.4 1.9 + - - -
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Residues in contact with GLY 195 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191K GLU 3.7 0.8 + - - -
192K CYS 3.4 3.6 + - - -
193K LEU 3.2 1.4 - - - -
194K ARG* 1.3 79.5 - - - +
196K GLY* 1.3 56.2 + - - +
414K ALA* 3.5 24.7 - - - -
417K ALA* 3.6 11.4 - - - -
418K ALA* 3.1 26.7 + - - +
4P TRP* 4.2 9.9 - - - -
17P TYR* 3.4 13.2 - - - -
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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
------------------------------------------------------------
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