Contacts of the helix formed by residues 124 - 148 (chain C) in PDB entry 1ORZ
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 LEU 124 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220B MET* 4.4 0.4 - - - -
223B THR* 5.0 7.4 - - + -
231B ASN* 5.0 16.2 - - + +
122C LEU* 3.2 8.3 - - + +
123C THR* 1.3 82.3 - - - +
125C LYS* 1.3 74.7 + - + +
126C GLY* 3.4 11.9 - - - +
127C VAL* 2.7 37.3 - - + +
128C TYR* 2.9 10.2 + - - +
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Residues in contact with LYS 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B MET* 3.0 38.2 + - + +
223B THR* 3.9 16.1 - - + +
224B ARG* 3.1 65.3 - - - +
34C TYR* 3.6 16.5 - - - +
36C PRO* 3.2 33.2 - - + +
124C LEU* 1.3 78.0 - - + +
126C GLY* 1.3 61.8 + - - +
128C TYR* 2.9 4.8 + - - +
129C ARG* 2.8 35.2 + - - +
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Residues in contact with GLY 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C LEU* 3.4 11.4 - - - +
125C LYS* 1.3 79.2 - - - +
127C VAL* 1.3 63.4 + - - +
129C ARG* 3.1 17.5 + - - +
130C THR* 3.0 22.2 + - - +
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Residues in contact with VAL 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C GLU* 3.2 15.9 - - + +
122C LEU* 2.7 74.7 - - + +
124C LEU* 2.7 33.0 - - + +
126C GLY* 1.3 76.4 - - - +
128C TYR* 1.3 56.3 + - - +
130C THR* 2.7 29.5 - - + +
131C GLY* 2.9 7.3 + - - -
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Residues in contact with TYR 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B HIS 4.7 0.9 + - - -
218B THR* 2.6 37.4 + - + -
219B ILE 4.1 1.3 - - - -
220B MET* 3.8 17.7 - - + -
36C PRO* 3.0 42.5 + - + -
42C LEU* 2.9 18.9 - - + +
43C SER* 5.0 0.7 - - - -
112C ARG* 2.7 50.1 + - - +
116C TRP* 2.8 44.9 - + - -
121C GLU* 5.4 1.6 - - - -
122C LEU 4.8 4.0 - - - -
123C THR* 5.4 1.3 - - - -
124C LEU 2.9 10.7 + - - +
125C LYS* 2.9 13.0 + - - +
127C VAL* 1.3 81.3 - - + +
129C ARG* 1.3 65.5 + - - +
131C GLY 3.1 0.5 + - - -
132C TYR* 3.0 7.8 + - - +
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Residues in contact with ARG 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B ARG* 3.5 35.4 - - - +
34C TYR* 5.2 5.8 - - - -
35C GLN* 4.2 21.7 - - + +
36C PRO* 3.7 28.6 - - + +
125C LYS* 2.8 24.9 + - + +
126C GLY* 3.4 12.9 + - - +
128C TYR* 1.3 76.3 - - - +
130C THR* 1.3 63.2 + - - +
132C TYR* 3.1 13.4 + - - +
133C ALA* 3.2 12.3 + - - +
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Residues in contact with THR 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C GLU* 4.0 7.2 - - - +
126C GLY 3.0 9.8 + - - -
127C VAL* 2.7 35.4 - - + +
129C ARG* 1.3 75.4 - - - +
131C GLY* 1.3 60.4 + - - +
133C ALA* 2.9 17.8 + - - +
134C LEU* 2.7 38.5 + - + +
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Residues in contact with GLY 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C ARG* 2.9 23.1 - - - -
121C GLU* 4.3 8.3 - - - -
127C VAL 2.9 8.4 + - - -
128C TYR 3.1 1.0 + - - -
130C THR* 1.3 84.9 - - - +
132C TYR* 1.3 59.9 + - - +
134C LEU* 3.3 9.2 + - - -
135C ILE* 2.7 30.2 + - - +
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Residues in contact with TYR 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35C GLN* 4.7 2.5 - - + +
36C PRO* 5.0 0.4 - - + -
39C THR* 2.8 46.2 - - + -
40C TRP* 2.8 43.1 - + - +
41C TYR* 3.2 17.5 + - + -
42C LEU* 3.0 34.8 - - + -
112C ARG* 3.1 9.9 - - - +
128C TYR 3.0 8.4 + - - +
129C ARG* 3.6 9.2 - - - +
130C THR 3.1 0.2 - - - -
131C GLY* 1.3 77.3 - - - +
133C ALA* 1.3 73.5 + - + +
135C ILE* 2.9 19.2 + - + +
136C GLY* 3.1 25.6 + - - -
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Residues in contact with ALA 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ARG 3.2 7.8 + - - +
130C THR* 2.9 13.2 + - - +
132C TYR* 1.3 92.7 - - + +
134C LEU* 1.3 67.9 + - + +
135C ILE 3.2 0.2 + - - -
136C GLY* 3.3 1.2 + - - -
137C PHE* 3.1 20.8 + - - +
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Residues in contact with LEU 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C GLU* 6.0 0.2 - - - +
130C THR* 2.7 56.4 + - + +
131C GLY* 3.8 9.2 - - - +
132C TYR 3.2 0.2 - - - -
133C ALA* 1.3 77.9 - - + +
135C ILE* 1.3 70.1 + - + +
137C PHE* 3.0 11.7 + - + +
138C THR* 2.9 26.5 + - - +
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Residues in contact with ILE 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C TYR 5.7 2.0 - - - +
105C ILE* 4.9 7.9 - - + +
108C GLY* 3.8 15.7 - - - +
109C GLY* 3.9 22.9 - - - +
112C ARG* 3.0 37.7 - - + +
131C GLY* 2.7 24.5 - - - +
132C TYR* 2.9 18.2 + - + +
134C LEU* 1.3 83.3 - - + +
136C GLY* 1.3 66.3 + - - +
138C THR* 3.0 8.7 + - - +
139C ALA* 2.8 24.1 + - + +
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Residues in contact with GLY 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C TRP* 5.9 5.2 - - - -
41C TYR* 6.0 2.5 - - - -
105C ILE* 5.8 0.9 - - - -
132C TYR* 3.1 31.9 + - - -
133C ALA 3.3 2.6 + - - -
135C ILE* 1.3 79.4 - - - +
137C PHE* 1.3 62.6 + - - +
139C ALA* 3.0 9.0 + - - +
140C VAL* 2.9 28.8 + - - +
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Residues in contact with PHE 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C ALA 3.1 11.2 + - - +
134C LEU* 3.0 16.7 + - + +
136C GLY* 1.3 76.1 - - - +
138C THR* 1.3 65.2 + - - +
140C VAL* 2.7 33.0 - - + +
141C LEU* 3.0 34.8 - - + +
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Residues in contact with THR 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C TYR* 4.1 21.7 + - + +
108C GLY* 6.4 1.8 - - - -
134C LEU* 2.9 16.2 + - - +
135C ILE* 3.6 9.7 - - - -
137C PHE* 1.3 81.7 - - - +
139C ALA* 1.3 64.1 + - - +
141C LEU* 3.0 10.2 + - + +
142C GLY* 3.0 18.0 + - - -
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Residues in contact with ALA 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C ALA* 4.9 8.1 - - - +
105C ILE* 3.2 42.4 - - + +
107C TYR* 5.2 3.1 - - - -
135C ILE* 2.8 15.6 + - + +
136C GLY* 3.0 12.5 + - - +
138C THR* 1.3 77.0 - - - +
140C VAL* 1.3 59.2 + - + +
142C GLY* 3.0 3.9 + - - +
143C THR* 2.8 32.3 + - - -
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Residues in contact with VAL 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C TRP* 4.1 28.9 - - + -
136C GLY 2.9 18.8 + - - +
137C PHE* 2.7 35.0 - - + +
139C ALA* 1.3 77.2 - - + +
141C LEU* 1.3 75.3 + - + +
143C THR* 3.1 8.6 + - - -
144C TYR* 2.8 24.8 + - - +
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Residues in contact with LEU 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137C PHE* 3.0 54.1 - - + +
138C THR* 3.0 10.9 + - + +
140C VAL* 1.3 93.0 - - + +
142C GLY* 1.3 61.6 + - - +
144C TYR* 3.0 8.0 + - + +
145C LEU* 2.7 40.2 + - + +
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Residues in contact with GLY 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C ALA* 5.1 9.6 - - - -
107C TYR* 5.0 9.2 - - - -
138C THR* 3.0 13.5 + - - -
139C ALA* 3.0 3.3 + - - -
141C LEU* 1.3 76.1 - - - +
143C THR* 1.3 58.0 + - - +
145C LEU* 3.1 9.4 + - - +
146C LEU* 2.8 28.5 + - - +
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Residues in contact with THR 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C GLY 5.2 2.9 - - - +
101C TYR* 3.2 44.5 + - + +
104C ALA* 5.0 1.9 - - - +
105C ILE* 5.0 2.4 - - - +
139C ALA* 2.8 19.5 + - - +
140C VAL* 3.5 10.3 - - - -
142C GLY* 1.3 76.9 - - - +
144C TYR* 1.3 63.1 + - - +
146C LEU* 3.0 8.6 + - + +
147C THR* 2.9 26.2 + - + +
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Residues in contact with TYR 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140C VAL 2.8 13.1 + - - +
141C LEU* 3.3 14.1 - - + +
143C THR* 1.3 77.4 - - - +
145C LEU* 1.3 75.7 + - + +
147C THR* 2.9 31.5 - - + +
148C LEU* 2.9 28.9 + - + +
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Residues in contact with LEU 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C LEU* 2.7 47.0 + - + +
142C GLY* 3.1 8.0 + - - +
144C TYR* 1.3 87.6 - - + +
146C LEU* 1.3 57.1 + - - +
148C LEU* 2.6 34.6 + - + +
141D ASP* 5.8 3.6 - - - +
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Residues in contact with LEU 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C TRP* 5.2 4.4 + - + +
96C LYS* 4.2 6.7 - - + +
97C GLY* 3.4 36.1 - - - +
100C ALA* 2.9 31.9 - - + -
142C GLY 2.8 13.9 + - - +
143C THR* 3.0 12.8 + - + +
145C LEU* 1.3 80.3 - - - +
147C THR* 1.3 69.9 + - - +
148C LEU 3.5 3.8 - - - +
139D GLU* 5.2 9.2 - - - +
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Residues in contact with THR 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C TRP* 3.3 34.3 + - - +
97C GLY* 5.6 2.5 - - - -
143C THR* 2.9 15.2 + - + +
144C TYR* 2.9 31.4 - - + +
146C LEU* 1.3 86.5 - - - +
148C LEU* 1.3 72.7 + - + +
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Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C TRP* 4.6 6.6 - - - -
144C TYR* 2.9 34.2 + - + +
145C LEU* 2.6 29.5 + - + +
146C LEU 3.5 4.2 - - - +
147C THR* 1.3 90.7 - - + +
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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