Contacts of the helix formed by residues 132 - 153 (chain A) in PDB entry 1PS9
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 132 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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129A HIS* 5.4 1.1 - - - -
130A GLU 3.6 1.5 + - - -
131A LEU* 1.3 73.9 - - - +
133A HIS* 1.3 66.6 + - - +
134A GLU* 3.5 11.3 - - - +
135A GLU* 2.9 51.7 + - - +
136A ILE* 3.0 15.4 + - - +
179A ARG* 4.2 1.3 - - - +
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Residues in contact with HIS 133 (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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132A SER* 1.3 74.2 - - - +
134A GLU* 1.3 63.6 + - - +
136A ILE* 3.2 12.8 + - - +
137A LEU* 3.2 51.9 + - + +
179A ARG* 4.0 5.6 - - - +
181A ASP* 3.9 15.9 - - - +
182A GLN* 2.9 34.6 + - + -
183A TRP* 3.3 18.0 + - - +
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Residues in contact with GLU 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A SER* 3.5 14.1 - - - +
133A HIS* 1.3 80.6 + - - +
135A GLU* 1.3 71.9 + - + +
137A LEU* 3.4 12.8 + - + +
138A GLN* 3.1 21.7 + - - +
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Residues in contact with GLU 135 (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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114A VAL* 6.2 0.7 - - - -
129A HIS* 3.0 35.5 + - - -
131A LEU* 3.4 19.1 - - + +
132A SER* 2.9 37.1 + - - +
134A GLU* 1.3 79.4 - - + +
136A ILE* 1.3 60.9 + - - +
138A GLN* 3.2 8.4 + - - +
139A LEU* 2.9 29.7 + - - +
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Residues in contact with ILE 136 (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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131A LEU* 3.7 20.0 - - + -
132A SER 3.0 11.4 + - - +
133A HIS 3.5 6.3 - - - +
135A GLU* 1.3 74.0 - - - +
137A LEU* 1.3 59.9 + - - +
139A LEU* 3.2 9.4 + - - +
140A ILE* 2.9 33.3 + - - +
171A PHE* 3.9 18.8 - - + -
179A ARG* 3.6 33.7 - - - +
183A TRP* 3.9 36.3 - - + +
193A PHE* 3.7 29.2 - - + -
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Residues in contact with LEU 137 (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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133A HIS* 3.2 34.0 + - + +
134A GLU* 3.6 13.2 - - + +
135A GLU 3.3 0.2 - - - -
136A ILE* 1.3 79.1 - - - +
138A GLN* 1.3 57.4 + - - +
140A ILE* 3.3 12.1 + - + +
141A ASP* 3.0 25.8 + - - +
183A TRP* 3.9 26.5 - - + -
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Residues in contact with GLN 138 (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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134A GLU 3.1 14.3 + - - +
135A GLU* 3.5 11.4 - - - +
136A ILE 3.2 0.2 - - - -
137A LEU* 1.3 75.8 - - - +
139A LEU* 1.3 54.1 + - - +
141A ASP* 3.0 19.7 + - - +
142A ASN* 2.7 59.5 + - - +
145A ARG* 5.6 1.4 - - - +
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Residues in contact with LEU 139 (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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61A PRO* 5.2 0.9 - - + -
62A ASP* 3.8 19.1 - - - +
64A THR* 5.1 0.4 - - - +
103A HIS* 3.6 28.7 - - + +
114A VAL* 4.6 1.6 - - + -
131A LEU* 3.9 29.6 - - + -
135A GLU 2.9 13.0 + - - +
136A ILE* 3.2 9.6 + - - +
138A GLN* 1.3 74.9 - - - +
140A ILE* 1.3 59.7 + - - +
142A ASN* 2.8 26.7 + - + +
143A PHE* 2.9 31.2 + - + -
167A LEU* 3.5 26.9 - - + -
193A PHE* 4.4 9.6 - - + -
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Residues in contact with ILE 140 (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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136A ILE 2.9 19.2 + - - +
137A LEU* 3.5 15.0 - - + +
138A GLN 3.2 0.2 - - - -
139A LEU* 1.3 77.9 - - - +
141A ASP* 1.3 61.8 + - - +
143A PHE* 3.5 9.7 + - - +
144A ALA* 3.5 16.6 + - - +
183A TRP* 3.5 31.6 - - + -
193A PHE* 3.5 22.9 - - + -
196A GLU* 3.8 43.5 - - + +
197A VAL* 4.2 7.1 - - + -
200A ALA* 3.8 14.1 - - + +
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Residues in contact with ASP 141 (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 LEU 3.0 12.9 + - - +
138A GLN* 3.0 23.2 + - - +
140A ILE* 1.3 78.3 - - - +
142A ASN* 1.3 57.3 + - - +
144A ALA* 3.3 6.4 + - - +
145A ARG* 2.9 25.1 + - - +
200A ALA* 5.6 0.9 - - - -
204A ARG* 3.3 25.5 + - - -
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Residues in contact with ASN 142 (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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61A PRO* 4.0 17.1 - - + +
62A ASP* 3.7 20.4 + - + +
138A GLN* 2.7 40.8 + - - +
139A LEU* 2.8 17.4 + - + +
141A ASP* 1.3 77.1 - - - +
143A PHE* 1.3 57.4 + - - +
145A ARG* 2.9 40.3 + - - +
146A CYS* 2.9 28.8 + - - +
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Residues in contact with PHE 143 (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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61A PRO* 4.0 19.7 - - + -
101A ILE* 3.5 46.9 - - + +
103A HIS* 4.0 17.5 - - + -
139A LEU* 2.9 41.4 + - + -
140A ILE 3.7 7.4 - - - +
141A ASP 3.3 0.2 - - - -
142A ASN* 1.3 74.8 - - - +
144A ALA* 1.3 64.1 + - - +
146A CYS* 3.2 8.9 + - - +
147A ALA* 3.0 20.3 + - - +
160A VAL* 4.3 4.9 - - + -
161A MET 5.7 0.2 - - - -
167A LEU* 4.8 0.7 - - + -
168A ILE* 4.0 31.6 - - + -
193A PHE* 4.2 13.5 - + - -
197A VAL* 3.4 30.5 - - + +
201A VAL* 4.2 5.8 - - + +
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Residues in contact with ALA 144 (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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140A ILE 3.5 9.6 + - - +
141A ASP* 3.3 8.4 + - - +
142A ASN 3.2 0.2 - - - -
143A PHE* 1.3 76.6 - - - +
145A ARG* 1.3 60.1 + - - +
147A ALA* 3.1 3.7 + - - +
148A GLN* 2.8 29.6 + - - +
200A ALA* 3.8 25.4 - - + +
201A VAL* 4.3 12.3 - - - +
204A ARG* 3.3 33.2 - - + +
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Residues in contact with ARG 145 (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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61A PRO 3.1 24.9 + - - -
75A ASN* 3.6 35.3 + - - +
138A GLN* 5.6 1.6 - - - +
141A ASP* 2.9 14.5 + - - +
142A ASN* 2.9 35.3 + - - +
144A ALA* 1.3 75.1 - - - +
146A CYS* 1.3 64.1 + - - +
148A GLN* 3.1 9.6 + - - +
149A LEU* 3.0 34.8 + - + +
204A ARG* 3.6 15.1 - - - +
706A CL 3.8 14.3 - - - +
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Residues in contact with CYS 146 (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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59A ILE* 4.7 1.8 - - - -
60A ALA 4.2 6.1 - - - -
61A PRO* 3.9 14.6 - - + +
74A LEU* 3.7 32.7 - - - +
99A LEU* 4.5 9.0 - - - -
101A ILE* 3.8 33.4 - - + -
142A ASN 2.9 14.0 + - - +
143A PHE 3.3 10.8 - - - +
145A ARG* 1.3 77.1 - - - +
147A ALA* 1.3 57.7 + - - +
149A LEU* 3.3 4.4 + - - +
150A ALA* 3.0 26.7 + - - +
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Residues in contact with ALA 147 (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 ILE* 3.9 8.2 - - + +
143A PHE 3.0 11.3 + - - +
144A ALA* 3.1 6.9 + - - +
146A CYS* 1.3 73.4 - - - +
148A GLN* 1.3 67.8 + - - +
150A ALA* 3.1 2.1 + - - +
151A ARG* 2.8 24.9 + - - +
158A VAL* 4.1 17.7 - - + -
201A VAL* 3.5 32.1 - - + -
205A VAL* 3.9 13.2 - - + +
209A PHE* 4.5 1.4 - - - -
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Residues in contact with GLN 148 (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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144A ALA 2.8 12.2 + - - +
145A ARG* 3.4 11.5 - - - +
147A ALA* 1.3 76.3 - - - +
149A LEU* 1.3 58.8 + - + +
151A ARG* 3.3 8.7 + - - +
152A GLU* 2.9 36.3 + - + +
204A ARG* 2.9 45.0 + - + +
205A VAL* 4.4 4.0 - - - +
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Residues in contact with LEU 149 (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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74A LEU* 3.6 35.7 - - + +
75A ASN* 3.6 5.2 - - - -
76A ASP* 3.5 25.8 - - - +
77A ALA* 3.6 32.5 - - + +
80A ILE* 4.1 16.0 - - + +
145A ARG* 3.0 27.0 + - + +
146A CYS 3.5 6.1 - - - +
148A GLN* 1.3 77.0 - - + +
150A ALA* 1.3 60.5 + - - +
152A GLU* 3.0 6.7 + - + +
153A ALA* 2.8 29.8 + - - +
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Residues in contact with ALA 150 (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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74A LEU* 3.9 5.8 - - - +
99A LEU* 4.1 14.4 - - + -
146A CYS 3.0 13.8 + - - +
147A ALA 3.1 8.3 + - - +
149A LEU* 1.3 75.3 - - - +
151A ARG* 1.3 62.9 + - - +
153A ALA* 3.1 10.0 + - - -
155A TYR* 3.1 45.1 + - + -
158A VAL* 3.7 24.5 - - + -
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Residues in contact with ARG 151 (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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147A ALA 2.8 16.1 + - - +
148A GLN* 3.5 7.4 + - - +
150A ALA* 1.3 75.3 - - - +
152A GLU* 1.3 76.3 + - - +
154A GLY* 2.9 14.2 + - - -
155A TYR 4.4 2.9 - - - +
204A ARG 5.4 0.2 - - - -
205A VAL* 3.4 42.1 + - + +
208A ASP 5.5 2.4 + - - -
209A PHE* 3.7 32.5 - - + +
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Residues in contact with GLU 152 (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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80A ILE* 3.6 26.5 - - + -
84A ARG* 3.5 18.6 + - - +
148A GLN* 2.9 22.1 + - + +
149A LEU* 3.3 10.3 - - + +
151A ARG* 1.3 87.8 + - - +
153A ALA* 1.3 58.2 + - - +
154A GLY* 3.1 4.9 + - - -
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Residues in contact with ALA 153 (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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74A LEU* 5.7 0.7 - - + -
80A ILE* 3.9 22.4 - - + +
83A HIS* 3.5 31.4 - - + -
84A ARG* 3.5 18.0 - - - +
87A THR* 2.8 18.9 + - - +
149A LEU 2.8 12.4 + - - +
150A ALA* 3.4 11.0 - - - +
152A GLU* 1.3 75.9 - - - +
154A GLY* 1.3 58.6 + - - +
155A TYR* 3.6 7.0 - - + -
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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
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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