Contacts of the helix formed by residues 150 - 173 (chain T) in PDB entry 6FF7
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 ASN 150 (chain T).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149T LYS* 1.3 75.3 - - - +
151T SER* 1.3 57.7 + - - +
152T LEU 3.2 0.4 - - - -
153T ALA* 3.1 6.5 + - + +
154T TYR* 2.6 40.2 + - + +
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Residues in contact with SER 151 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149T LYS* 3.5 5.7 - - - +
150T ASN* 1.3 76.3 - - - +
152T LEU* 1.3 57.4 + - - +
154T TYR* 3.4 4.1 + - - +
155T GLN* 2.9 31.7 + - - +
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Residues in contact with LEU 152 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149T LYS* 4.0 16.3 + - + +
150T ASN 3.2 0.2 - - - -
151T SER* 1.3 77.4 - - - +
153T ALA* 1.3 58.9 + - - +
155T GLN* 3.3 5.2 + - - +
156T ARG* 2.9 33.5 + - - +
387T MET* 5.9 9.4 - - + -
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Residues in contact with ALA 153 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149T LYS 3.4 16.4 + - - +
150T ASN* 3.1 8.9 + - - +
152T LEU* 1.3 80.0 - - - +
154T TYR* 1.3 57.6 + - - +
156T ARG* 3.8 4.8 - - - +
157T MET* 3.0 29.8 + - - +
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Residues in contact with TYR 154 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150T ASN* 2.6 21.6 + - + +
151T SER* 4.0 3.4 - - - +
153T ALA* 1.3 70.9 - - - +
155T GLN* 1.3 62.1 + - - +
157T MET* 3.8 5.6 - - - +
158T SER* 2.9 33.4 + - - -
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Residues in contact with GLN 155 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151T SER 2.9 18.8 + - - +
152T LEU* 3.8 4.7 - - - +
154T TYR* 1.3 76.3 - - - +
156T ARG* 1.3 57.3 + - - +
158T SER* 3.9 5.0 - - - -
159T TRP* 2.8 31.4 + - - +
386T LYS 5.8 1.3 - - - +
387T MET* 5.5 11.9 - - - -
388T ASP* 5.5 4.0 - - + +
391T PHE* 5.6 9.9 - - + -
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Residues in contact with ARG 156 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152T LEU 2.9 18.7 + - - +
153T ALA* 3.8 5.8 - - - +
155T GLN* 1.3 76.7 - - - +
157T MET* 1.3 57.3 + - - +
159T TRP* 3.2 8.7 + - - +
160T GLU* 2.9 29.5 + - - +
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Residues in contact with MET 157 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153T ALA 3.0 18.3 + - - +
154T TYR* 3.8 6.1 - - - +
156T ARG* 1.3 76.7 - - - +
158T SER* 1.3 57.6 + - - +
160T GLU* 3.1 7.8 + - - +
161T ALA* 2.9 29.0 + - - +
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Residues in contact with SER 158 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154T TYR 2.9 21.1 + - - -
155T GLN* 3.9 5.6 - - - -
157T MET* 1.3 74.2 - - - +
159T TRP* 1.3 57.1 + - - +
161T ALA* 3.5 6.9 + - - +
162T LEU* 2.9 29.8 + - - +
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Residues in contact with TRP 159 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155T GLN 2.8 19.4 + - - +
156T ARG* 3.3 9.4 - - - +
158T SER* 1.3 76.4 - - - +
160T GLU* 1.3 62.9 + - - +
162T LEU* 3.2 7.7 + - - +
163T LYS* 3.1 23.8 + - - +
385T PHE* 4.8 17.5 - - + -
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Residues in contact with GLU 160 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156T ARG 2.9 16.0 + - - +
157T MET* 3.1 7.1 + - - +
159T TRP* 1.3 72.3 - - - +
161T ALA* 1.3 66.0 + - - +
163T LYS* 3.4 6.6 + - - +
164T LYS* 3.2 22.7 + - - +
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Residues in contact with ALA 161 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157T MET 2.9 15.8 + - - +
158T SER* 3.9 7.0 - - - +
160T GLU* 1.3 73.6 - - - +
162T LEU* 1.3 61.1 + - - +
164T LYS* 3.4 6.1 + - - +
165T SER* 2.9 31.1 + - - -
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Residues in contact with LEU 162 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158T SER 2.9 19.6 + - - +
159T TRP* 3.2 8.7 + - - +
161T ALA* 1.3 76.2 - - - +
163T LYS* 1.3 63.7 + - - +
165T SER* 3.8 5.9 - - - -
166T ILE* 3.0 25.1 + - - +
188T GLU* 5.8 8.3 - - + -
189T ASN* 5.7 6.7 - - + +
193T GLY* 6.1 4.5 - - - -
196T LEU* 6.0 1.6 - - - -
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Residues in contact with LYS 163 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159T TRP 3.1 15.6 + - - +
160T GLU* 3.8 6.7 - - - +
161T ALA 3.2 0.2 - - - -
162T LEU* 1.3 76.5 - - - +
164T LYS* 1.3 59.1 + - - +
166T ILE* 3.5 4.9 + - - +
167T ASN* 2.9 29.2 + - - +
196T LEU* 5.1 14.6 - - + -
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Residues in contact with LYS 164 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160T GLU 3.2 14.4 + - - +
161T ALA* 3.7 5.8 - - - +
163T LYS* 1.3 77.0 - - - +
165T SER* 1.3 66.7 + - - +
167T ASN* 3.2 7.3 + - - +
168T GLY* 2.9 21.8 + - - -
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Residues in contact with SER 165 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161T ALA 2.9 18.4 + - - -
162T LEU* 3.8 6.3 - - - -
164T LYS* 1.3 77.9 - - - +
166T ILE* 1.3 64.7 + - - +
168T GLY* 3.3 1.4 + - - -
169T LEU* 3.0 23.3 + - - +
188T GLU* 5.6 9.2 - - - -
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Residues in contact with ILE 166 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162T LEU 3.0 18.1 + - - +
163T LYS* 3.7 5.4 - - - +
165T SER* 1.3 74.4 - - - +
167T ASN* 1.3 63.6 + - - +
169T LEU* 3.2 7.9 + - - +
170T ILE* 2.9 25.5 + - - +
196T LEU* 5.3 5.8 - - + +
197T LEU* 5.0 20.2 - - + +
200T SER* 4.9 7.6 - - - -
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Residues in contact with ASN 167 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163T LYS 2.9 18.3 + - - +
164T LYS* 3.5 8.3 - - - +
166T ILE* 1.3 75.9 - - - +
168T GLY* 1.3 63.5 + - - +
170T ILE* 3.3 6.2 + - - +
171T ASN* 3.0 22.3 + - - +
200T SER* 4.9 9.6 - - - -
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Residues in contact with GLY 168 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164T LYS 2.9 13.8 + - - -
165T SER* 3.7 2.5 - - - -
167T ASN* 1.3 76.1 - - - +
169T LEU* 1.3 61.7 + - - +
171T ASN* 3.1 9.5 + - - +
172T LYS* 2.9 23.4 + - - +
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Residues in contact with LEU 169 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165T SER 3.0 16.9 + - - +
166T ILE* 3.2 7.6 + - - +
168T GLY* 1.3 74.0 - - - +
170T ILE* 1.3 61.3 + - - +
172T LYS* 3.1 7.8 + - - +
173T VAL* 3.1 25.3 + - - +
181T ILE* 4.9 18.7 - - + +
184T GLU* 5.9 4.3 - - + -
185T LEU* 5.2 13.0 - - + +
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Residues in contact with ILE 170 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166T ILE 2.9 16.7 + - - +
167T ASN 3.8 4.3 - - - +
169T LEU* 1.3 76.5 - - - +
171T ASN* 1.3 62.5 + - - +
172T LYS 3.5 0.3 + - - -
173T VAL* 3.6 14.4 + - - +
200T SER* 4.4 26.7 - - - +
201T VAL* 5.1 3.1 - - - +
204T ALA* 4.8 14.2 - - + +
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Residues in contact with ASN 171 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167T ASN 3.0 13.8 + - - +
168T GLY* 3.1 10.5 + - - +
170T ILE* 1.3 77.4 - - - +
172T LYS* 1.3 60.2 + - - +
173T VAL 4.5 2.6 - - - +
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Residues in contact with LYS 172 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168T GLY 2.9 15.9 + - - +
169T LEU* 3.1 8.5 + - - +
171T ASN* 1.3 78.0 - - - +
173T VAL* 1.3 65.8 + - - +
174T ASN* 3.4 6.4 + - - +
177T ASN* 5.4 5.2 - - - +
181T ILE* 6.1 2.7 - - + -
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Residues in contact with VAL 173 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169T LEU 3.1 14.4 + - - +
170T ILE* 3.6 10.7 + - - +
171T ASN 3.4 4.9 - - - +
172T LYS* 1.3 79.2 - - - +
174T ASN* 1.3 62.4 - - - +
177T ASN* 5.9 2.5 - - - -
178T ILE* 5.6 3.8 - - + +
181T ILE* 4.4 19.7 - - + -
211T PHE* 5.5 5.4 - - - +
214T VAL* 5.1 9.7 - - + +
218T LEU* 5.7 9.6 - - + -
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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
------------------------------------------------------------
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