Contacts of the helix formed by residues 148 - 166 (chain K) in PDB entry 3MQT
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 148 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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154D GLU* 4.4 14.6 + - - +
146K ASP 3.6 4.0 + - - +
147K ALA* 1.3 76.7 - - - +
149K LEU* 1.3 65.0 + - - +
150K SER* 3.8 6.1 + - - -
151K GLU* 3.1 39.9 + - - +
152K ILE* 3.0 22.9 + - - +
178K ASN* 5.8 0.2 - - - -
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Residues in contact with LEU 149 (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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147K ALA 4.0 0.2 + - - -
148K THR* 1.3 72.5 - - - +
150K SER* 1.3 63.7 + - - +
152K ILE* 3.2 17.3 + - + +
153K VAL* 3.0 28.5 + - - +
175K ILE* 5.9 1.3 - - + -
176K ILE 5.8 2.5 - - - +
178K ASN* 4.6 13.6 + - + +
181K VAL* 3.7 37.0 - - + +
185K GLU* 3.6 31.2 - - + +
186K ILE* 4.4 12.1 - - + -
189K TYR* 3.9 32.2 - - + -
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Residues in contact with SER 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150D SER* 2.8 25.3 + - - -
154D GLU* 3.3 37.8 + - - +
157D LYS* 5.2 3.1 - - - -
192D GLU* 5.4 3.3 + - - -
148K THR* 3.2 4.1 + - - -
149K LEU* 1.3 78.2 - - - +
151K GLU* 1.3 57.0 + - - +
153K VAL* 3.2 9.4 + - - +
154K GLU* 3.0 30.2 + - - +
192K GLU* 5.2 6.2 + - - -
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Residues in contact with GLU 151 (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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154D GLU* 5.8 4.3 - - + -
143K VAL* 4.4 3.7 - - + +
146K ASP 4.5 1.7 - - - +
147K ALA* 3.6 13.5 - - + +
148K THR* 3.1 42.4 + - - +
150K SER* 1.3 73.7 - - - +
152K ILE* 1.3 66.3 + - - +
154K GLU* 3.4 8.5 + - - +
155K ALA* 3.0 24.1 + - - +
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Residues in contact with ILE 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141K PRO* 4.0 12.4 - - + +
143K VAL* 4.2 14.4 - - + -
147K ALA* 3.7 27.6 - - + +
148K THR 3.0 21.2 + - - +
149K LEU* 3.6 22.0 - - + +
151K GLU* 1.3 74.5 - - - +
153K VAL* 1.3 57.4 + - - +
155K ALA* 3.3 3.3 + - - +
156K TYR* 2.9 38.4 + - + -
176K ILE* 3.8 29.8 - - + +
178K ASN* 5.5 2.5 - - - +
189K TYR* 3.4 26.0 - - + +
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Residues in contact with VAL 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149K LEU 3.0 20.1 + - - +
150K SER* 3.5 8.3 - - - +
151K GLU 3.2 0.2 - - - -
152K ILE* 1.3 78.1 - - - +
154K GLU* 1.3 64.6 + - - +
156K TYR* 3.0 22.8 + - - +
157K LYS* 3.2 22.5 + - - +
189K TYR* 3.6 26.5 - - + +
192K GLU* 3.7 41.5 - - + +
193K LEU* 4.2 19.1 - - + -
196K VAL* 4.6 2.9 - - + -
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Residues in contact with GLU 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148D THR* 4.4 14.8 + - - +
150D SER* 3.4 31.5 + - - +
151D GLU* 6.1 3.4 - - + -
150K SER 3.0 16.8 + - - +
151K GLU* 3.8 7.9 - - - +
153K VAL* 1.3 81.7 - - - +
155K ALA* 1.3 59.8 + - - +
157K LYS* 2.9 42.2 + - - +
158K PRO* 3.2 18.4 - - - +
192K GLU* 4.4 2.3 - - - +
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Residues in contact with ALA 155 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141K PRO* 4.0 10.0 - - + +
142K SER 4.7 4.9 - - - +
143K VAL* 3.5 31.6 - - + -
151K GLU 3.0 11.7 + - - +
152K ILE 3.7 2.9 - - - +
154K GLU* 1.3 74.1 - - - +
156K TYR* 1.3 64.6 + - - +
158K PRO* 3.4 16.7 - - - +
159K LEU* 4.2 12.3 - - - +
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Residues in contact with TYR 156 (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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139K LEU* 2.8 47.5 + - + -
140K TYR 4.4 0.2 - - - -
141K PRO* 3.7 26.1 - - + +
152K ILE* 2.9 25.7 + - + +
153K VAL 3.0 11.2 + - - +
155K ALA* 1.3 79.4 - - - +
157K LYS* 1.3 62.1 + - + +
159K LEU* 3.2 11.8 + - + +
160K ILE* 3.0 37.5 + - + +
173K VAL* 3.3 12.1 - - + -
174K CYS* 2.8 24.9 + - - +
176K ILE* 6.1 0.4 - - + -
189K TYR* 3.4 21.1 - - - -
193K LEU* 3.9 29.4 - - + -
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Residues in contact with LYS 157 (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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150D SER* 5.1 3.2 - - - -
153K VAL* 3.2 14.3 + - - +
154K GLU* 2.9 42.2 + - - +
155K ALA 3.3 0.2 - - - -
156K TYR* 1.3 77.3 - - - +
158K PRO* 1.3 66.6 - - + +
160K ILE* 4.1 1.2 - - - +
161K ALA* 2.9 29.5 + - - +
192K GLU* 4.5 8.3 + - - -
196K VAL* 3.8 43.4 - - + +
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Residues in contact with PRO 158 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154K GLU 3.2 14.8 - - - +
155K ALA* 3.4 15.0 - - - +
157K LYS* 1.3 92.3 - - + +
159K LEU* 1.3 58.8 + - + +
161K ALA* 3.7 5.9 - - + +
162K LYS* 2.9 32.0 + - - +
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Residues in contact with LEU 159 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139K LEU* 4.5 14.9 - - + +
140K TYR 3.7 31.4 - - - +
141K PRO* 3.9 16.6 - - + -
142K SER 5.3 0.2 - - - +
155K ALA 4.2 11.7 - - - +
156K TYR* 3.2 14.3 + - + +
158K PRO* 1.3 82.0 - - + +
160K ILE* 1.3 56.1 + - - +
162K LYS* 3.3 10.4 + - + +
163K ALA* 2.9 27.0 + - - +
339K ASP 4.7 3.6 - - - +
340K PHE* 3.5 41.9 - - + +
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Residues in contact with ILE 160 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139K LEU* 3.6 24.7 - - + -
156K TYR* 3.0 43.9 + - + +
157K LYS 4.1 2.9 - - - +
159K LEU* 1.3 72.6 - - - +
161K ALA* 1.3 68.9 + - - +
163K ALA* 3.2 3.7 + - - +
164K LYS* 3.0 43.7 + - - +
171K VAL* 4.9 0.7 - - + -
173K VAL* 4.8 2.2 - - + -
193K LEU* 4.4 8.5 - - + -
196K VAL* 4.0 29.8 - - + +
197K ILE* 4.1 27.1 - - + -
201K MET* 4.3 5.8 - - + -
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Residues in contact with ALA 161 (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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157K LYS 2.9 20.5 + - - +
158K PRO* 3.7 7.6 - - + +
160K ILE* 1.3 78.2 - - - +
162K LYS* 1.3 58.1 + - - +
164K LYS* 3.3 11.5 + - - +
165K GLU* 3.0 25.8 + - - +
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Residues in contact with LYS 162 (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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158K PRO 2.9 20.3 + - - +
159K LEU* 3.5 10.6 - - + +
161K ALA* 1.3 75.1 - - - +
163K ALA* 1.3 66.3 + - - +
165K GLU* 3.0 18.4 + - - +
166K ARG* 3.2 45.7 + - - +
339K ASP* 3.3 32.5 + - + +
340K PHE* 4.0 8.1 - - + -
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Residues in contact with ALA 163 (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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137K PHE* 5.7 0.2 - - + -
139K LEU* 4.7 3.4 - - + -
159K LEU 2.9 17.5 + - - +
160K ILE* 3.2 10.7 + - - +
162K LYS* 1.3 71.8 - - - +
164K LYS* 1.3 61.2 + - - +
166K ARG* 3.1 9.5 + - - +
168K ALA* 3.0 31.3 + - + +
171K VAL* 3.8 28.5 - - + -
201K MET* 4.6 2.2 - - + -
340K PHE* 3.6 24.1 - - + -
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Residues in contact with LYS 164 (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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160K ILE* 3.0 23.1 + - - +
161K ALA* 3.4 13.2 - - - +
163K ALA* 1.3 73.1 - - - +
165K GLU* 1.3 64.8 + - - +
167K GLY* 3.1 13.7 + - - +
168K ALA 4.7 1.1 - - - +
196K VAL 2.9 24.6 + - - -
197K ILE 3.2 25.6 + - - -
198K GLY* 4.6 1.8 - - - +
201K MET* 3.8 22.6 - - + -
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Residues in contact with GLU 165 (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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161K ALA 3.0 13.2 + - - +
162K LYS* 3.0 13.3 + - - +
164K LYS* 1.3 75.8 - - - +
166K ARG* 1.3 96.7 + - - +
167K GLY 3.3 1.0 + - - -
355K LYS* 4.4 3.1 + - - -
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Residues in contact with ARG 166 (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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162K LYS* 3.5 41.7 - - - +
163K ALA* 3.1 9.0 + - - +
165K GLU* 1.3 112.5 + - - +
167K GLY* 1.3 58.2 + - - +
168K ALA* 4.6 0.9 - - + +
339K ASP* 3.0 31.5 + - - +
340K PHE* 4.4 6.3 - - + -
355K LYS* 2.8 37.7 - - - +
356K ILE* 3.7 31.3 - - + +
357K ILE 4.1 0.2 - - - -
358K ASP* 3.4 9.6 + - - -
359K GLY 2.9 21.0 + - - -
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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
------------------------------------------------------------
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