Contacts of the helix formed by residues 152 - 169 (chain B) in PDB entry 2C6N
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 152 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B SER* 3.4 6.9 + - - -
151B ARG* 1.3 77.5 - - - +
153B TYR* 1.3 68.1 + - - +
154B ALA* 3.9 6.8 + - - +
155B MET* 3.6 29.6 + - - +
156B LEU* 2.9 27.1 + - - +
611B ILE 5.5 1.4 + - - -
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Residues in contact with TYR 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B ARG 3.9 3.6 + - - -
152B SER* 1.3 71.9 + - - +
154B ALA* 1.3 59.8 + - - +
156B LEU* 3.6 8.3 - - - +
157B LEU* 2.9 35.4 + - + +
237B TYR* 4.5 16.4 - + + -
241B TYR* 3.5 57.2 - + + -
249B PRO* 4.6 1.1 - - + -
251B HIS* 3.4 33.7 + + - -
252B LEU* 3.8 20.2 - - + -
476B PRO* 3.8 4.2 + - - +
601B PRO* 3.1 31.9 - - - +
602B PRO 4.1 2.3 + - - -
604B PRO* 3.9 26.5 - - + -
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Residues in contact with ALA 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B SER* 3.2 6.7 + - - +
153B TYR* 1.3 78.8 - - - +
155B MET* 1.3 58.5 + - - +
157B LEU* 3.0 4.6 + - - +
158B PHE* 2.8 29.8 + - - +
604B PRO* 4.1 28.9 - - + +
607B TYR* 4.3 8.1 - - + -
610B GLY* 4.9 17.7 - - - +
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Residues in contact with MET 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B TRP* 4.8 15.7 - - + -
146B ILE* 3.4 38.2 - - + +
150B SER* 3.6 15.3 - - - +
152B SER* 3.3 22.0 + - - +
154B ALA* 1.3 79.7 - - - +
156B LEU* 1.3 62.9 + - - +
158B PHE* 3.5 7.9 + - + +
159B ALA* 3.2 22.5 + - - +
610B GLY* 6.1 0.2 - - - -
611B ILE 3.1 31.4 - - - +
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Residues in contact with LEU 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ILE* 3.1 29.4 - - - +
147B LEU* 3.7 20.8 - - + +
150B SER* 3.3 26.0 - - - +
152B SER 2.9 25.5 + - - +
153B TYR 3.6 0.7 - - - +
155B MET* 1.3 76.7 - - - +
157B LEU* 1.3 59.0 + - - +
159B ALA* 3.4 4.5 + - - +
160B TRP* 2.9 30.7 + - - +
237B TYR* 3.8 19.7 - - + +
251B HIS* 3.5 32.7 - - + +
252B LEU* 4.1 10.5 - - + +
254B GLY* 6.2 0.7 - - - -
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Residues in contact with LEU 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B TYR* 2.9 17.3 + - + +
154B ALA 3.3 7.2 - - - +
156B LEU* 1.3 78.6 - - - +
158B PHE* 1.3 57.1 + - - +
160B TRP* 4.4 0.4 - - - -
161B GLU* 2.8 37.0 + - + +
251B HIS* 3.4 11.2 - - - +
476B PRO* 3.2 48.2 - - + +
477B VAL* 4.2 9.2 - - + -
603B LEU* 4.2 6.7 - - + -
604B PRO* 3.3 39.5 - - + -
607B TYR* 3.4 26.0 - - + +
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Residues in contact with PHE 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B VAL* 4.4 9.5 - - + +
128B CYS 3.8 20.2 - - - -
129B LEU* 4.2 15.9 - - + -
130B PRO* 3.8 22.0 - - + -
137B TRP* 4.4 17.0 - + + -
154B ALA 2.8 15.4 + - - +
155B MET* 3.8 11.4 - - + +
157B LEU* 1.3 77.3 - - - +
159B ALA* 1.3 58.1 + - - +
161B GLU* 4.2 1.3 - - - +
162B GLY* 2.9 28.7 + - - -
607B TYR* 2.9 23.9 + + + +
608B PRO* 3.4 35.4 - - + -
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Residues in contact with ALA 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B VAL* 5.2 2.2 - - - -
137B TRP* 4.6 3.1 - - + -
143B LEU* 3.9 27.3 - - + +
146B ILE* 4.3 13.7 - - + -
147B LEU* 3.7 21.5 - - + -
155B MET 3.2 14.2 + - - +
156B LEU 3.9 0.4 - - - +
158B PHE* 1.3 81.8 - - - +
160B TRP* 1.3 60.9 + - - +
162B GLY* 5.0 0.2 - - - -
163B TRP* 3.0 31.6 + - - +
256B MET* 3.9 1.9 - - - +
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Residues in contact with TRP 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B LEU* 4.2 4.9 - - + +
156B LEU 2.9 18.2 + - - +
157B LEU* 3.8 3.6 - - - +
159B ALA* 1.3 75.8 - - - +
161B GLU* 1.3 90.5 + - + +
163B TRP* 4.1 0.2 - - - +
164B HIS* 2.8 68.0 + + - -
250B ALA* 4.0 12.6 + - + +
251B HIS* 3.6 25.6 - - + -
256B MET* 3.3 33.2 + - - -
464B TRP* 3.8 25.4 - + - -
467B ARG* 5.1 1.6 - - - +
475B PRO* 3.9 14.1 - - + -
476B PRO* 3.6 34.8 - - + -
477B VAL* 3.8 20.4 - - + -
479B ARG* 4.3 10.8 - - - -
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Residues in contact with GLU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157B LEU* 2.8 20.9 + - + +
158B PHE* 5.1 1.9 - - - +
160B TRP* 1.3 86.3 - - + +
162B GLY* 1.3 66.3 + - - +
164B HIS* 3.0 4.9 + - - +
165B ASN* 2.8 45.9 + - - +
477B VAL* 3.7 32.5 - - + +
479B ARG* 4.4 3.2 + - - +
607B TYR* 2.8 33.2 + - - +
1D NAG 5.3 4.9 + - - -
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Residues in contact with GLY 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B VAL* 3.7 19.5 - - - -
158B PHE* 2.9 20.8 + - - -
159B ALA 4.0 0.2 - - - -
161B GLU* 1.3 77.6 - - - +
163B TRP* 1.3 60.8 + - - +
165B ASN* 4.0 5.3 - - - +
166B ALA* 2.9 28.2 + - - +
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Residues in contact with TRP 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122B TYR* 3.2 51.1 - + - -
125B ALA* 3.8 31.4 - - + -
126B LYS* 5.7 0.2 - - - -
127B VAL* 3.7 9.0 - - + +
138B SER* 5.0 0.4 - - - -
139B LEU* 3.3 45.3 - - + -
143B LEU* 4.0 13.0 - - + -
159B ALA 3.0 20.0 + - - +
162B GLY* 1.3 75.1 - - - +
164B HIS* 1.3 65.3 + - - +
166B ALA* 3.8 1.2 - - + +
167B ALA* 2.8 42.5 + - + +
256B MET* 3.6 36.7 - - + +
257B TRP* 4.1 1.2 - - - -
488B ALA* 3.1 24.6 + - + +
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Residues in contact with HIS 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160B TRP* 2.8 65.8 + + + +
161B GLU* 3.0 5.3 + - - +
163B TRP* 1.3 84.1 - + - +
165B ASN* 1.3 67.3 + - - +
168B GLY* 3.3 18.9 + - - -
169B ILE* 4.2 2.1 + - - +
256B MET* 3.8 20.4 + - + -
257B TRP* 4.8 8.5 - + - -
463B TRP* 5.9 0.6 + - - -
464B TRP* 5.6 0.6 - - - -
467B ARG* 5.3 4.8 + - - -
479B ARG* 3.9 8.6 + - - +
484B PHE 4.9 2.4 + - - +
485B ASP* 3.2 45.3 + - + +
488B ALA* 3.8 20.7 - - + +
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Residues in contact with ASN 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B GLU* 2.8 43.3 + - - +
162B GLY* 4.0 4.8 - - - +
164B HIS* 1.3 74.8 - - - +
166B ALA* 1.3 65.1 + - - +
167B ALA 3.3 0.3 + - - -
169B ILE* 3.4 38.4 + - + +
170B PRO* 3.9 1.0 - - - +
479B ARG* 3.1 30.9 + - - +
483B HIS* 3.5 10.8 + - - -
1D NAG 5.9 1.4 + - - -
2D NAG 6.0 0.2 + - - -
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Residues in contact with ALA 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121B ILE* 5.3 0.9 - - - +
125B ALA* 4.0 17.1 - - + +
126B LYS 3.6 24.2 - - - +
127B VAL* 4.9 0.4 - - + -
162B GLY 2.9 19.2 + - - +
163B TRP* 3.8 4.7 - - - +
165B ASN* 1.3 78.3 - - - +
167B ALA* 1.3 56.0 + - - +
170B PRO* 3.4 20.5 - - - +
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Residues in contact with ALA 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121B ILE* 4.5 4.2 - - - +
122B TYR* 4.6 8.0 - - + +
125B ALA* 4.2 7.6 - - + -
163B TRP* 2.8 51.3 + - + +
166B ALA* 1.3 78.6 - - - +
168B GLY* 1.3 60.1 + - - +
169B ILE 3.7 0.4 - - - -
170B PRO* 3.8 5.6 - - - +
171B LEU* 3.3 27.8 - - - +
487B GLY 4.8 0.4 - - - -
488B ALA* 4.3 11.2 - - - -
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Residues in contact with GLY 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B HIS 3.3 10.6 + - - -
167B ALA* 1.3 79.2 - - - +
169B ILE* 1.3 68.1 + - - +
170B PRO 3.4 0.2 - - - -
171B LEU* 4.2 3.4 - - - -
172B LYS 3.1 12.5 + - - -
484B PHE* 3.1 44.5 - - - +
487B GLY 4.5 5.2 - - - -
488B ALA* 4.7 1.8 - - - +
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Residues in contact with ILE 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B HIS 4.2 1.7 + - - +
165B ASN* 3.4 29.9 + - + +
168B GLY* 1.3 78.1 - - - +
170B PRO* 1.3 72.4 - - + +
171B LEU 3.2 0.2 + - - -
172B LYS* 3.3 11.0 + - - +
173B PRO* 3.5 8.7 - - - +
482B THR* 3.7 26.6 - - - +
483B HIS* 3.9 28.7 - - + +
484B PHE* 4.8 2.2 - - - +
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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
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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