Contacts of the strand formed by residues 198 - 209 (chain A) in PDB entry 6UWZ
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 198 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A ILE 6.1 0.7 - - - -
151A TYR 4.8 5.4 - - - -
152A ASP* 3.7 25.5 - - + +
153A GLY 4.7 1.1 - - - +
187A TRP* 3.4 1.9 - - - -
188A VAL* 3.0 37.9 + - + +
190A TYR* 3.5 31.2 - + + +
192A CYS* 4.6 10.4 - - - -
196A THR* 3.6 29.4 - - + +
197A PRO* 1.3 75.5 - - - +
199A LEU* 1.3 62.3 + - - +
200A ASP* 4.4 1.1 - - - +
81B ARG* 5.9 1.5 + - - -
36F ARG* 3.4 57.2 + - + +
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Residues in contact with LEU 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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93A TYR* 4.7 4.7 + - - -
147A GLY* 3.9 13.9 - - - -
148A ILE 4.5 4.0 + - - +
152A ASP* 5.9 0.2 - - - +
153A GLY* 3.9 20.3 - - - +
156A VAL 4.1 2.2 - - - +
157A SER* 3.7 18.2 - - - +
158A ILE* 3.7 39.1 - - + +
185A LYS* 4.0 21.5 - - - +
186A HIS 3.3 6.3 - - - +
187A TRP* 3.6 28.5 - - + -
197A PRO* 4.3 13.2 - - + -
198A TYR* 1.3 76.2 - - - +
200A ASP* 1.3 64.8 + - - +
9F SER* 5.7 0.4 - - - +
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Residues in contact with ASP 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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93A TYR* 5.6 3.1 - - + -
145A LYS* 3.5 33.7 + - + -
146A LEU 3.1 14.6 - - - +
147A GLY* 4.7 0.9 - - - -
158A ILE* 4.2 2.9 - - - -
185A LYS* 3.6 0.8 - - - -
186A HIS* 2.8 57.7 + - - +
188A VAL* 4.3 15.6 - - - +
198A TYR 4.4 0.9 - - - +
199A LEU* 1.3 79.1 - - - +
201A ILE* 1.3 61.7 + - - +
202A THR* 3.4 7.6 + - - -
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Residues in contact with ILE 201 (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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33A VAL* 3.7 30.7 - - + -
90A LEU* 6.1 0.2 - - + -
144A MET 3.5 2.8 - - - +
146A LEU* 2.7 45.1 + - + +
158A ILE* 3.8 26.6 - - + +
159A SER 3.9 2.0 - - - +
160A PRO* 3.8 24.9 - - + -
184A TRP 3.3 14.1 - - - +
185A LYS* 4.2 15.0 - - + -
200A ASP* 1.3 75.2 - - - +
202A THR* 1.3 61.1 + - - +
203A TYR* 3.4 36.3 + - + +
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Residues in contact with THR 202 (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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143A THR* 3.8 30.3 - - + +
144A MET 3.3 7.2 - - - +
145A LYS* 3.4 17.7 - - + +
182A ARG 4.1 0.3 - - - +
183A GLY* 3.5 1.4 - - - -
184A TRP* 2.8 30.3 + - - +
186A HIS* 3.7 15.8 - - - -
200A ASP* 3.4 18.4 + - - -
201A ILE* 1.3 70.2 - - - +
203A TYR* 1.3 63.7 + - - +
204A HIS* 3.9 3.8 + - + +
1H NAG 4.9 0.4 - - - -
2H NAG 3.9 25.6 - - + +
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Residues in contact with TYR 203 (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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33A VAL* 3.4 28.1 + - + +
34A GLY* 3.7 6.8 - - - -
35A LEU* 3.9 30.7 - - + -
143A THR* 3.2 1.3 - - - -
144A MET* 2.6 40.2 + - + +
146A LEU* 4.1 24.0 - - + -
160A PRO* 3.9 6.9 - - + +
161A GLU 4.5 0.5 + - - -
162A SER 4.7 9.8 + - - -
164A ARG 4.9 0.2 - - - -
165A PRO* 3.6 26.9 - - + -
182A ARG 3.4 2.9 - - - +
183A GLY* 3.5 23.6 - - - -
201A ILE* 3.4 26.6 - - + +
202A THR* 1.3 71.7 - - - +
204A HIS* 1.3 58.7 + - - +
205A PHE* 3.7 22.4 - - + -
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Residues in contact with HIS 204 (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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141A ASN* 3.4 22.4 - - - +
142A CYS 3.3 6.7 - - - +
143A THR* 4.0 13.2 - - + -
180A ASP* 6.0 1.4 - - - -
181A TYR* 3.4 6.1 - - - +
182A ARG* 3.0 61.1 + - + +
184A TRP* 3.9 23.5 - + - -
202A THR* 4.5 2.7 + - + +
203A TYR* 1.3 73.2 - - - +
205A PHE* 1.3 68.3 + - - +
206A ILE* 4.2 18.5 - - + +
1H NAG 3.9 36.3 + - - -
2H NAG 4.5 4.5 + - - -
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Residues in contact with PHE 205 (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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35A LEU* 3.6 24.9 - - + -
37A LEU* 3.7 27.8 - - + -
52A THR* 6.3 0.4 - - + -
140A GLN 3.6 2.9 - - - +
142A CYS* 2.9 39.1 + - + +
144A MET* 3.6 28.5 - - + -
165A PRO* 3.7 28.7 - - + -
167A LEU* 4.4 2.9 - - + -
178A MET* 3.6 21.3 - - + -
180A ASP 3.8 4.0 - - - -
181A TYR* 3.8 12.8 - + + -
203A TYR* 3.7 18.8 - - + -
204A HIS* 1.3 76.9 - - - +
206A ILE* 1.3 62.2 - - - +
207A MET* 3.6 11.8 + - + +
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Residues in contact with ILE 206 (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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139A GLN* 3.6 38.1 - - + +
140A GLN 3.3 4.9 - - - +
141A ASN* 4.2 19.5 - - + +
178A MET* 3.5 3.3 - - - -
179A LYS* 2.7 43.2 + - + +
180A ASP* 3.0 34.7 + - + +
204A HIS* 4.2 18.2 - - + +
205A PHE* 1.3 71.7 - - - +
207A MET* 1.3 55.8 + - - +
1H NAG 3.7 26.0 - - + +
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Residues in contact with MET 207 (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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40A LEU* 3.7 27.6 - - + -
43A VAL* 4.2 10.5 - - - -
50A VAL* 4.4 8.3 - - + -
139A GLN* 3.6 3.5 - - - -
140A GLN* 3.0 38.9 + - + +
142A CYS* 3.6 37.5 - - + -
176A TRP* 3.6 32.6 - - + -
177A VAL 3.0 9.2 - - - +
178A MET* 3.6 15.5 - - + -
205A PHE* 3.8 20.2 - - + +
206A ILE* 1.3 74.0 - - - +
208A GLN* 1.3 59.7 + - - +
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Residues in contact with GLN 208 (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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137A PHE 6.0 1.8 - - - -
138A ASP 4.0 10.5 - - - +
139A GLN* 3.5 22.7 + - + +
176A TRP* 3.9 1.8 - - - -
177A VAL* 2.5 44.3 + - + +
179A LYS* 3.4 38.6 - - + +
206A ILE 4.2 1.0 + - - -
207A MET* 1.3 72.6 - - - +
209A ARG* 1.3 67.5 - - - +
429A ARG* 5.0 1.6 - - - +
433A LEU* 3.2 33.9 - - - +
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Residues in contact with ARG 209 (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 GLU* 2.2 41.2 + - - +
135A PHE* 3.1 24.5 - - - -
136A PRO* 3.1 35.5 - - - +
137A PHE* 5.4 2.3 - - - -
138A ASP* 2.6 48.5 + - - +
175A GLU* 3.7 15.3 + - + +
176A TRP* 3.2 37.0 - - + +
177A VAL* 5.4 0.4 - - - -
208A GLN* 1.3 80.6 - - - +
210A ILE* 1.3 70.5 + - - +
211A PRO* 3.3 12.5 - - - +
214A PHE* 4.1 17.7 - - + -
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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