Contacts of the helix formed by residues 134 - 154 (chain A) in PDB entry 2OZO
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 GLU 134 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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128A ARG* 2.5 49.8 + - - -
132A LYS 4.1 2.0 + - - +
133A LEU* 1.3 78.9 - - - +
135A GLY* 1.3 81.8 + - - +
137A ALA* 3.1 12.7 - - - +
138A LEU* 3.0 15.7 + - - +
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Residues in contact with GLY 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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124A ARG* 5.9 0.2 + - - -
134A GLU* 1.3 90.3 + - - +
136A GLU* 1.3 63.7 + - - -
138A LEU* 3.0 7.0 + - - +
139A GLU* 3.0 16.7 + - - +
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Residues in contact with GLU 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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135A GLY* 1.3 68.2 - - - -
137A ALA* 1.3 55.5 + - - +
139A GLU* 2.7 17.6 + - - +
140A GLN* 2.4 64.5 + - + +
143A ILE* 5.6 4.2 - - - +
451A TYR* 6.4 1.8 - - + -
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Residues in contact with ALA 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A LEU* 3.0 29.6 - - + +
134A GLU 3.1 12.1 - - - +
136A GLU* 1.3 77.5 - - - +
138A LEU* 1.3 57.1 + - - +
140A GLN* 3.3 9.2 + - - +
141A ALA* 2.9 22.0 + - - +
319A PHE* 3.7 7.7 - - + -
320A SER* 4.7 9.6 - - - +
396A PRO* 5.0 6.3 - - + -
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Residues in contact with LEU 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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124A ARG* 3.9 30.1 - - - +
127A VAL* 3.5 22.2 - - + -
128A ARG* 3.3 60.3 - - + +
133A LEU* 3.6 17.4 - - + +
134A GLU* 3.0 18.7 + - - +
135A GLY 3.0 10.5 + - - +
137A ALA* 1.3 75.1 - - - +
139A GLU* 1.3 60.8 + - - +
141A ALA* 3.1 1.4 + - - +
142A ILE* 2.9 41.5 + - + +
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Residues in contact with GLU 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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124A ARG* 4.7 10.5 - - - +
135A GLY 3.0 7.9 + - - +
136A GLU* 2.7 41.3 + - - +
138A LEU* 1.3 74.1 - - - +
140A GLN* 1.3 54.9 + - - +
142A ILE* 3.9 8.2 - - - +
143A ILE* 3.1 42.9 + - + +
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Residues in contact with GLN 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 GLU* 2.4 64.5 + - + +
137A ALA 3.6 5.2 - - - +
139A GLU* 1.3 66.4 - - - +
141A ALA* 1.3 67.2 + - - +
143A ILE* 5.5 2.9 - - - +
144A SER 3.6 10.4 + - - -
319A PHE* 4.3 0.2 - - - -
395A ASN* 3.2 27.2 + - - +
396A PRO* 4.0 21.1 - - + -
397A TYR* 3.0 40.4 + - + -
447A MET* 3.6 26.6 + - - +
451A TYR* 5.6 2.8 - - - +
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Residues in contact with ALA 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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127A VAL* 3.8 10.5 - - + -
133A LEU* 3.3 29.2 - - + -
137A ALA 2.9 6.6 + - - +
138A LEU 3.1 3.8 + - - +
140A GLN* 1.3 79.3 - - - +
142A ILE* 1.3 56.9 + - - +
144A SER* 3.8 0.2 - - - -
145A GLN* 2.9 34.4 + - - +
315A PHE* 3.2 34.8 - - + -
319A PHE* 3.7 3.3 - - + -
397A TYR* 4.2 0.2 - - - -
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Residues in contact with ILE 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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123A VAL* 4.3 15.9 - - + -
124A ARG* 3.5 61.0 - - - +
127A VAL* 4.1 22.9 - - + +
138A LEU* 2.9 29.2 + - + +
139A GLU* 3.9 3.8 - - - +
141A ALA* 1.3 71.7 - - - +
143A ILE* 1.3 71.8 + - + +
144A SER 2.9 0.3 + - - -
145A GLN* 4.5 1.1 - - - +
146A ALA* 2.8 34.2 + - + +
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Residues in contact with ILE 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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136A GLU* 5.6 3.8 - - - +
139A GLU* 3.1 26.2 + - + +
140A GLN* 5.2 3.6 - - - +
142A ILE* 1.3 82.4 - - + +
144A SER* 1.3 56.1 + - - +
443A HIS* 3.6 16.8 - - + +
447A MET* 3.2 27.4 - - + -
450A LYS* 5.9 4.0 - - - +
590A GLU* 4.1 4.3 - - - +
594A ARG* 3.8 30.7 - - - +
598A TYR* 2.4 34.0 + - - +
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Residues in contact with SER 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 GLN 3.6 2.3 + - - -
141A ALA 3.3 1.9 + - - -
142A ILE 3.0 0.8 - - - -
143A ILE* 1.3 82.2 - - - +
145A GLN* 1.3 80.2 + - - +
146A ALA 3.6 0.9 - - - -
147A PRO* 3.9 0.7 - - - +
397A TYR* 3.2 24.0 - - - -
440A GLU* 4.7 1.4 + - - +
443A HIS* 4.2 9.2 + - - -
444A GLN* 3.4 19.8 + - - +
447A MET* 3.6 16.8 - - - -
597A TYR* 3.5 25.5 + - - -
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Residues in contact with GLN 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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141A ALA 2.9 12.7 + - - +
142A ILE 3.7 0.7 - - - -
144A SER* 1.3 101.8 + - - +
146A ALA* 1.3 55.6 + - - +
147A PRO* 3.1 3.8 - - - -
148A GLN* 3.0 20.6 + - + +
149A VAL* 2.7 44.0 + - + +
311A ASP* 5.3 0.9 - - - +
313A SER* 4.2 12.0 + - - +
314A VAL* 3.5 15.2 + - + +
315A PHE* 3.3 35.7 - - + -
440A GLU* 2.7 29.8 + - - +
444A GLN* 3.5 11.9 - - - +
473A HIS* 4.8 2.6 - - - +
597A TYR* 5.4 0.2 - - - -
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Residues in contact with ALA 146 (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 VAL* 4.3 22.4 - - + -
142A ILE* 2.8 20.8 + - + +
145A GLN* 1.3 75.9 - - - +
147A PRO* 1.3 72.4 - - + +
149A VAL* 3.8 0.3 - - - +
150A GLU* 2.9 37.1 + - + +
598A TYR* 4.1 15.7 - - + +
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Residues in contact with PRO 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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144A SER 3.9 6.3 - - - +
145A GLN* 3.2 5.2 - - - -
146A ALA* 1.3 96.3 - - + +
148A GLN* 1.3 59.6 + - - +
150A GLU* 3.7 11.8 + - - +
151A LYS* 3.5 29.8 + - - +
597A TYR* 4.1 14.4 - - + +
598A TYR* 3.5 36.6 - - + +
601A ALA* 3.7 30.3 - - + +
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Residues in contact with GLN 148 (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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145A GLN* 3.0 23.5 + - + +
147A PRO* 1.3 76.6 - - - +
149A VAL* 1.3 66.1 + - + +
151A LYS* 3.3 23.3 + - - +
152A LEU* 3.2 36.5 + - + +
311A ASP* 3.3 44.4 + - - +
313A SER* 3.9 20.2 + - - +
440A GLU* 5.7 1.6 - - - +
597A TYR* 5.5 1.8 + - - +
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Residues in contact with VAL 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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123A VAL* 3.7 24.7 - - + +
126A TYR* 3.5 31.9 - - + -
127A VAL* 4.2 16.6 - - + -
131A TRP* 5.1 7.0 - - + -
142A ILE* 6.0 0.7 - - - -
145A GLN* 2.7 37.3 + - + +
146A ALA 3.8 3.1 - - - +
148A GLN* 1.3 71.9 - - + +
150A GLU* 1.3 65.0 + - - +
152A LEU* 3.2 13.6 + - + +
153A ILE* 2.9 30.3 + - + +
313A SER* 5.9 0.9 - - - +
315A PHE* 5.2 2.2 - - + -
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Residues in contact with GLU 150 (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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2A PRO* 3.9 13.3 - - - +
119A ARG* 2.8 36.7 - - + +
123A VAL* 4.0 16.2 - - + -
146A ALA* 2.9 26.6 + - + +
147A PRO* 4.0 11.3 - - - +
148A GLN 3.3 0.2 - - - -
149A VAL* 1.3 74.8 - - - +
151A LYS* 1.3 66.9 + - + +
153A ILE* 3.0 12.7 + - - +
154A ALA* 2.9 24.2 + - - +
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Residues in contact with LYS 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 PRO* 3.5 16.8 + - - +
148A GLN* 3.3 29.3 + - - +
149A VAL 3.3 0.4 - - - -
150A GLU* 1.3 77.3 - - + +
152A LEU* 1.3 62.5 + - - +
154A ALA* 3.2 12.4 + - - +
155A THR* 3.1 21.8 + - - -
601A ALA* 3.5 28.3 + - - +
602A SER* 4.4 11.4 + - - +
604A VAL* 5.1 11.0 - - - +
605A GLU* 5.7 2.9 - - - -
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Residues in contact with LEU 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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126A TYR* 3.4 34.8 - - + +
131A TRP* 4.7 15.3 - - + -
148A GLN* 3.2 33.6 + - + +
149A VAL* 3.4 14.1 - - + +
150A GLU 3.1 0.4 - - - -
151A LYS* 1.3 80.8 - - - +
153A ILE* 1.3 55.6 + - - +
155A THR* 3.1 6.1 + - - -
156A THR* 3.0 38.0 + - + +
313A SER* 4.8 2.9 - - - +
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Residues in contact with ILE 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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122A MET* 3.9 34.1 - - + -
123A VAL* 3.7 41.7 - - + +
126A TYR* 3.5 23.1 - - + -
149A VAL* 2.9 24.3 + - + +
150A GLU* 3.0 10.1 + - - +
152A LEU* 1.3 75.6 - - - +
154A ALA* 1.3 57.5 + - + +
155A THR 3.3 0.4 - - - -
156A THR* 3.1 19.3 + - - +
231A THR* 4.5 8.8 + - - +
233A TRP* 3.8 20.0 - - + -
234A GLN* 5.3 5.7 - - + +
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Residues in contact with ALA 154 (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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150A GLU 2.9 13.4 + - - +
151A LYS* 3.7 8.1 - - - +
152A LEU 3.1 0.6 - - - -
153A ILE* 1.3 78.0 - - + +
155A THR* 1.3 60.4 + - - +
156A THR 3.7 0.2 - - - -
230A ASP* 6.0 3.8 - - + +
231A THR* 4.1 21.7 - - + +
234A GLN* 5.2 7.9 - - - +
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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