Contacts of the helix formed by residues 177 - 195 (chain A) in PDB entry 4ASQ
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 VAL 177 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A ALA 4.5 1.8 - - - +
123A MET* 3.8 38.8 - - + +
126A ASN* 3.7 38.1 - - + +
173A ALA 4.6 2.0 - - - +
174A GLY 3.1 6.3 + - - +
175A THR 2.9 1.4 + - - -
176A ALA* 1.3 78.5 - - - +
178A ARG* 1.3 64.0 + - - +
179A SER 3.4 2.2 - - - -
180A GLN* 3.3 20.0 + - - +
181A PHE* 2.9 15.7 + - + +
490A PHE* 5.0 0.2 - - - -
493A PRO* 3.8 29.2 - - + -
499A SER* 4.7 2.0 - - - +
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Residues in contact with ARG 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A GLY 4.0 1.6 + - - -
175A THR* 3.2 16.4 + - - +
176A ALA 3.6 0.8 - - - -
177A VAL* 1.3 75.9 - - - +
179A SER* 1.3 59.4 + - - +
181A PHE* 3.2 3.3 + - - +
182A GLU* 2.9 53.5 + - + +
462A LYS 4.2 15.2 + - - -
465A TRP* 4.8 4.9 - - - +
466A ASN* 4.3 0.2 - - - +
487A GLU* 2.8 31.4 + - - +
488A LYS 5.0 3.8 + - - -
489A ASP 2.7 30.7 + - - -
490A PHE* 3.7 44.8 - - + +
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Residues in contact with SER 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ALA 5.5 0.3 + - - -
177A VAL 3.4 0.4 - - - -
178A ARG* 1.3 75.8 - - - +
180A GLN* 1.3 80.9 + - - +
182A GLU* 3.4 13.7 + - - +
183A ARG* 3.2 22.0 + - - +
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Residues in contact with GLN 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A THR* 3.1 21.7 - - + +
122A ALA* 4.3 24.0 + - + +
123A MET* 3.8 19.3 - - + -
176A ALA 3.8 8.1 + - - +
177A VAL* 3.4 30.7 - - - +
179A SER* 1.3 83.9 + - - +
181A PHE* 1.3 59.6 + - - +
183A ARG* 3.3 4.0 + - - +
184A TYR* 2.9 24.9 + - - +
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Residues in contact with PHE 181 (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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123A MET* 3.7 18.6 - - - -
177A VAL* 2.9 18.1 + - + +
178A ARG 3.2 4.9 + - - +
180A GLN* 1.3 77.2 - - - +
182A GLU* 1.3 57.0 + - - +
184A TYR* 3.2 32.2 + + - +
185A VAL* 2.9 51.7 + - + +
451A TYR* 5.1 2.9 - + - -
452A ARG* 4.7 12.8 - - + -
455A LEU* 3.8 22.0 - - + -
456A PHE* 5.8 0.7 - + - -
465A TRP* 4.1 2.9 - + - -
490A PHE* 3.6 29.6 - + + -
493A PRO* 4.1 10.8 - - + -
498A ILE* 3.4 35.7 - - + -
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Residues in contact with GLU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A ARG* 2.9 45.0 + - + +
179A SER* 3.5 13.3 - - - +
181A PHE* 1.3 77.8 - - - +
183A ARG* 1.3 61.3 + - - +
185A VAL* 3.5 4.3 + - - +
186A GLU* 3.2 28.9 + - - +
462A LYS* 3.8 33.5 + - + +
465A TRP* 3.7 29.1 - - + -
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Residues in contact with ARG 183 (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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112A ASP* 4.4 6.9 + - - -
115A GLU* 2.8 42.4 + - - +
119A THR* 4.2 12.1 - - + +
179A SER 3.2 9.8 + - - +
180A GLN* 3.7 9.0 - - - +
182A GLU* 1.3 76.2 - - - +
184A TYR* 1.3 60.5 + - - +
186A GLU* 2.9 38.8 + - - +
187A LEU* 2.9 57.7 + - + +
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Residues in contact with TYR 184 (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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105A TYR* 3.9 8.5 - - - -
116A LEU* 4.1 13.6 - - + +
119A THR* 3.9 9.8 - - + +
120A LEU* 3.7 15.9 - - + -
123A MET* 3.8 15.5 - - + -
180A GLN 2.9 14.1 + - - +
181A PHE* 3.2 46.4 + + - +
183A ARG* 1.3 72.7 - - - +
185A VAL* 1.3 63.6 + - + +
187A LEU* 3.3 1.2 + - - +
188A ASN* 2.8 40.8 + - - +
204A TRP* 4.1 4.3 - - - -
452A ARG* 4.6 4.1 + - - -
456A PHE* 3.4 33.5 - + - -
498A ILE 4.8 1.6 - - - -
501A ASP* 2.6 48.1 + - + +
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Residues in contact with VAL 185 (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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181A PHE* 2.9 44.1 + - + +
182A GLU 3.7 7.2 - - - +
184A TYR* 1.3 79.9 - - + +
186A GLU* 1.3 59.4 + - + +
188A ASN* 3.8 4.9 - - - +
189A THR* 2.7 40.2 + - - +
455A LEU* 4.0 25.1 - - + +
456A PHE* 4.3 16.8 - - + -
465A TRP* 3.8 25.4 - - + -
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Residues in contact with GLU 186 (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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182A GLU* 3.2 17.0 + - - +
183A ARG* 2.9 43.2 + - - +
185A VAL* 1.3 78.0 - - + +
187A LEU* 1.3 58.7 + - - +
189A THR* 3.4 6.0 + - - -
190A LYS* 3.0 26.7 + - - +
462A LYS* 3.4 25.2 + - - +
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Residues in contact with LEU 187 (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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108A LEU* 3.9 11.2 - - + +
112A ASP* 4.0 30.3 - - + +
115A GLU* 4.1 7.9 - - + +
116A LEU* 3.7 49.6 - - + +
119A THR* 4.7 1.1 - - - +
183A ARG* 2.9 62.1 + - + +
186A GLU* 1.3 75.1 - - - +
188A ASN* 1.3 61.1 + - - +
190A LYS* 3.4 10.3 + - + +
191A ALA* 2.9 29.8 + - - +
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Residues in contact with ASN 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A TYR* 2.9 42.3 + - + +
116A LEU* 4.8 1.6 - - - +
184A TYR* 2.8 30.7 + - + +
185A VAL 3.8 3.8 - - - +
187A LEU* 1.3 72.8 - - - +
189A THR* 1.3 56.5 + - - +
191A ALA* 3.4 3.1 + - - +
192A ALA* 3.0 25.8 + - - +
200A GLY* 3.2 26.5 + - - -
204A TRP* 5.0 6.9 - - - +
456A PHE* 3.8 34.9 - - + -
501A ASP* 4.5 1.0 + - - -
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Residues in contact with THR 189 (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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185A VAL* 2.7 30.0 + - - +
186A GLU* 3.6 6.9 - - - -
188A ASN* 1.3 77.0 + - - +
190A LYS* 1.3 65.1 + - - +
192A ALA* 3.3 5.6 + - - +
193A LYS* 3.0 48.9 + - + +
198A THR 4.8 4.5 - - - +
199A SER* 5.0 1.3 - - - -
200A GLY 4.9 2.0 - - - +
456A PHE* 3.7 26.0 + - - +
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Residues in contact with LYS 190 (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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108A LEU* 3.8 11.9 - - + -
109A PRO* 4.5 15.2 - - - +
112A ASP* 2.6 31.4 + - - +
186A GLU 3.0 16.9 + - - +
187A LEU* 3.7 13.0 - - + +
188A ASN 3.4 0.2 - - - -
189A THR* 1.3 74.7 - - - +
191A ALA* 1.3 62.2 + - - +
193A LYS* 3.4 7.7 + - - +
194A LEU* 3.1 32.7 + - + +
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Residues in contact with ALA 191 (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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104A GLY 4.1 3.1 - - - +
105A TYR* 3.8 31.6 - - + -
108A LEU* 3.7 23.4 - - + +
187A LEU 2.9 18.3 + - - +
188A ASN 3.6 4.9 - - - +
190A LYS* 1.3 72.4 - - - +
192A ALA* 1.3 64.1 + - - +
194A LEU* 3.2 7.9 + - - +
195A ASN* 2.9 29.4 + - - -
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Residues in contact with ALA 192 (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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188A ASN 3.0 14.4 + - - +
189A THR 3.6 4.7 - - - +
191A ALA* 1.3 75.2 - - - +
193A LYS* 1.3 61.0 + - - +
195A ASN* 3.1 15.3 + - - +
196A ASN 3.1 0.2 + - - -
197A PHE* 2.9 31.3 + - + +
199A SER* 3.3 38.8 - - - +
200A GLY* 3.5 7.9 - - - +
203A ALA* 4.4 6.5 - - + -
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Residues in contact with LYS 193 (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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189A THR* 3.0 36.1 + - + +
190A LYS* 3.9 6.5 - - - +
192A ALA* 1.3 75.7 - - - +
194A LEU* 1.3 58.2 + - - +
196A ASN* 2.9 26.3 + - - +
197A PHE 3.4 8.3 - - - +
198A THR* 2.8 41.7 + - - +
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Residues in contact with LEU 194 (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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107A ALA* 3.5 34.1 - - + +
108A LEU* 3.8 22.4 - - + +
109A PRO* 3.9 13.2 - - + -
190A LYS* 3.1 28.0 + - + +
191A ALA* 3.2 8.3 + - - +
193A LYS* 1.3 77.1 - - + +
195A ASN* 1.3 60.1 + - - +
196A ASN* 3.2 2.5 + - - +
1B NAG 3.7 19.8 + - - +
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Residues in contact with ASN 195 (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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101A THR 4.6 3.1 - - - +
102A LYS* 4.4 1.9 - - - -
103A LEU* 3.4 30.8 + - - +
104A GLY* 2.8 37.5 + - - +
107A ALA* 3.7 6.0 - - - +
191A ALA 2.9 20.2 + - - -
192A ALA* 3.1 10.1 + - - +
194A LEU* 1.3 77.2 - - - +
196A ASN* 1.3 68.0 + - - +
197A PHE* 3.2 28.9 + - + -
1B NAG 4.4 12.5 - - - +
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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