Contacts of the helix formed by residues 130 - 148 (chain A) in PDB entry 2Q06
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 THR 130 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A PHE* 5.5 1.6 - - + -
128A ASP* 2.9 29.8 + - - +
129A ALA* 1.3 70.2 - - - +
131A ALA* 1.3 56.6 + - - +
132A GLY 2.9 1.6 - - - -
133A LEU* 2.7 42.3 + - + +
134A THR* 2.9 20.7 + - - +
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Residues in contact with ALA 131 (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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32A MET* 3.7 24.3 - - + +
129A ALA* 2.3 24.0 + - + +
130A THR* 1.3 70.8 + - - +
132A GLY* 1.3 58.1 + - - +
134A THR* 2.8 22.0 + - - -
135A HIS* 3.1 13.5 + - - +
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Residues in contact with GLY 132 (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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32A MET* 3.8 21.2 - - - +
36A ILE* 3.9 12.1 - - - -
120A TRP* 4.0 9.9 - - - -
129A ALA 3.0 7.0 + - - -
130A THR 2.9 0.8 - - - -
131A ALA* 1.3 75.6 - - - +
133A LEU* 1.3 66.1 + - - +
134A THR 2.9 1.0 + - - -
135A HIS* 3.0 15.4 + - - +
136A MET* 2.9 19.0 - - - +
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Residues in contact with LEU 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A VAL* 4.1 18.4 - - + +
68A LEU* 3.4 39.4 - - + +
71A PHE* 4.0 27.8 - - + -
76A ASN* 4.4 14.6 - - - +
120A TRP* 3.6 29.4 - - + +
128A ASP* 3.7 10.5 - - - +
130A THR* 2.7 42.6 + - + +
132A GLY* 1.3 71.4 - - - +
134A THR* 1.3 60.2 + - + +
136A MET* 3.5 7.0 - - + +
137A MET* 3.4 12.1 + - - +
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Residues in contact with THR 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A ASN* 4.6 13.2 - - - +
130A THR* 2.9 17.7 + - - +
131A ALA* 2.8 27.8 + - - -
133A LEU* 1.3 75.0 - - + +
135A HIS* 1.3 65.2 + - - +
137A MET* 2.9 15.0 + - - +
138A ILE* 2.8 32.0 + - - +
177A GLY* 4.6 22.9 - - - +
179A ALA* 6.1 1.9 - - - +
180A GLY* 6.0 4.5 - - - -
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Residues in contact with HIS 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A MET* 3.6 25.7 - - + +
33A VAL* 4.4 5.6 - - + +
36A ILE* 4.6 12.8 - - + -
131A ALA 3.1 8.9 + - - +
132A GLY* 3.0 10.0 + - - +
134A THR* 1.3 79.8 + - - +
136A MET* 1.3 68.1 + - + +
138A ILE* 3.1 29.4 - - - +
139A TRP* 3.1 6.8 + - + +
274A SER 4.2 3.4 - - - -
275A CYS* 3.6 33.0 - - + +
276A LEU 4.2 3.3 + - - -
281A TYR* 3.2 42.9 + + - -
298A LEU* 4.3 15.3 - - + +
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Residues in contact with MET 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ILE* 3.3 37.9 - - + -
39A PHE* 6.3 2.0 - - - -
64A GLU* 4.0 40.4 - - + +
67A VAL* 5.2 6.1 - - - -
68A LEU* 4.4 15.3 - - + -
120A TRP* 4.1 9.9 - - + -
132A GLY 2.9 31.1 + - - +
133A LEU* 3.5 13.0 - - + +
134A THR 3.1 0.6 - - - -
135A HIS* 1.3 82.5 - - + +
137A MET* 1.3 58.4 + - - +
138A ILE 3.0 0.2 - - - -
139A TRP* 2.8 31.5 + - + +
140A HIS* 3.0 14.5 + - + -
276A LEU 5.8 1.8 - - - +
278A ALA* 5.1 3.4 - - + +
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Residues in contact with MET 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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68A LEU* 4.0 14.1 - - + -
76A ASN* 3.3 26.2 - - - +
77A ARG* 5.7 1.1 - - - -
133A LEU 3.4 8.9 + - - +
134A THR* 2.9 19.2 + - - +
136A MET* 1.3 75.3 - - - +
138A ILE* 1.3 64.9 + - + +
140A HIS* 4.0 13.9 - - + +
141A SER 3.6 12.8 + - - -
172A LEU* 3.3 37.5 - - + +
173A PRO* 3.3 28.9 - - + -
176A SER* 3.5 26.2 - - - -
177A GLY 4.7 4.0 - - - +
180A GLY* 5.1 5.4 - - - -
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Residues in contact with ILE 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 THR* 2.8 22.2 + - - +
135A HIS* 3.1 17.3 - - - +
137A MET* 1.3 83.0 - - + +
139A TRP* 1.3 66.9 + - - +
140A HIS 3.1 1.1 - - - -
141A SER* 3.1 7.2 + - - -
142A ASN* 2.9 33.1 + - - +
172A LEU* 4.9 4.5 - - + -
179A ALA 4.4 9.6 - - - +
180A GLY* 4.9 5.8 - - - -
183A ILE* 3.7 40.4 - - + -
273A LYS* 4.8 9.2 - - + +
275A CYS* 3.8 20.4 - - - -
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Residues in contact with TRP 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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57A ILE* 3.9 16.2 - - + -
61A ILE* 4.1 6.3 - - + -
64A GLU* 2.9 32.1 + - - -
135A HIS* 3.1 4.7 + - + +
136A MET* 2.8 21.4 + - + +
138A ILE* 1.3 76.2 - - - +
140A HIS* 1.3 76.1 + + - +
142A ASN* 3.3 5.1 + - - +
143A LEU* 2.8 67.2 + - + +
275A CYS* 3.3 41.0 - - + +
276A LEU 4.1 9.9 - - - +
277A PRO* 3.7 35.6 - - + +
329A VAL* 4.8 7.4 - - + -
332A ALA* 4.2 13.7 - - + -
333A CYS* 4.1 14.8 - - - -
363A VAL* 6.3 0.2 - - + -
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Residues in contact with HIS 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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61A ILE* 3.6 24.6 - - + +
64A GLU* 2.6 41.3 + - + -
65A ARG* 4.2 17.5 - - + -
68A LEU* 4.1 13.4 - - + +
136A MET 3.0 18.4 + - - -
137A MET* 4.0 15.1 - - + +
139A TRP* 1.3 91.8 - + - +
141A SER* 1.3 63.9 + - - +
143A LEU* 3.3 11.6 - - + +
144A ASN* 2.9 25.4 + - - +
364A GLN* 5.1 4.7 - - - -
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Residues in contact with SER 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A MET 3.6 3.2 + - - -
138A ILE* 3.1 9.7 + - - -
140A HIS* 1.3 73.8 - - - +
142A ASN* 1.3 57.3 + - - +
144A ASN* 2.6 25.9 + - - +
145A ASP* 2.7 22.6 + - - +
169A GLY* 3.1 28.5 - - - -
171A THR* 3.8 15.0 + - - -
172A LEU* 3.6 29.2 - - - -
183A ILE* 4.7 3.4 - - - +
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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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138A ILE* 2.9 29.4 + - - +
139A TRP* 3.3 11.0 - - - +
141A SER* 1.3 75.2 + - - +
143A LEU* 1.3 65.3 - - - +
145A ASP* 2.9 27.0 + - - +
146A ALA* 3.0 11.8 + - - +
168A GLN* 4.5 8.3 - - - +
183A ILE* 4.8 5.9 - - - +
273A LYS 3.4 12.5 + - - -
275A CYS* 4.4 6.9 - - - +
332A ALA* 3.5 21.4 + - - +
335A SER* 2.6 37.3 + - - +
337A ALA* 5.1 1.2 - - - +
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Residues in contact with LEU 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 ILE* 4.0 17.9 - - + -
139A TRP* 2.8 46.3 + - + +
140A HIS* 3.3 13.5 - - + +
142A ASN* 1.3 71.2 - - - +
144A ASN* 1.3 59.9 + - - +
146A ALA* 3.2 5.4 - - + +
147A THR* 2.6 42.0 + - - +
328A LEU* 5.1 4.9 - - + +
329A VAL* 5.3 2.5 - - + -
332A ALA* 3.3 25.7 - - + +
363A VAL* 4.1 27.1 - - + -
364A GLN* 4.6 12.6 - - + +
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Residues in contact with ASN 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 HIS 2.9 13.6 + - - +
141A SER* 2.6 17.5 + - - +
143A LEU* 1.3 73.0 - - - +
145A ASP* 1.3 54.4 + - - +
146A ALA 2.9 5.2 - - - -
147A THR* 2.8 19.6 + - - -
148A TYR* 2.9 38.3 + - - +
150A ARG* 2.4 32.3 + - - +
171A THR* 3.0 26.2 - - - +
364A GLN* 5.2 9.3 - - - +
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Residues in contact with ASP 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 SER* 2.7 27.0 + - - +
142A ASN* 2.9 15.0 + - - +
144A ASN* 1.3 71.9 - - - +
146A ALA* 1.3 58.8 + - - +
148A TYR 4.8 1.4 + - - +
150A ARG* 2.9 23.6 + - - +
167A MET 4.3 1.0 - - - +
168A GLN* 3.5 15.7 - - - +
169A GLY* 3.1 29.8 + - - -
170A SER 4.3 0.5 + - - -
171A THR* 3.6 5.5 + - - -
337A ALA* 3.4 16.7 - - + +
338A PHE* 4.1 21.2 - - + -
489A PHE* 3.5 18.0 - - - -
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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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142A ASN 3.0 8.9 + - - +
143A LEU 3.2 13.7 - - - +
144A ASN 2.9 0.2 - - - -
145A ASP* 1.3 80.6 - - - +
147A THR* 1.3 58.0 + - - +
328A LEU* 3.3 37.7 - - + +
331A MET* 4.6 5.2 - - + -
332A ALA* 4.0 13.2 - - + +
337A ALA* 3.9 13.0 - - + +
355A ARG* 3.9 2.3 + - - -
488A PHE* 3.3 22.1 - - + -
489A PHE* 4.1 1.2 - - - -
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Residues in contact with THR 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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143A LEU* 2.6 36.5 + - - +
144A ASN* 2.8 6.9 + - - -
146A ALA* 1.3 81.1 - - - +
148A TYR* 1.3 85.0 + - + -
149A GLN 3.7 2.8 + - - -
328A LEU* 3.9 13.7 - - + +
355A ARG* 3.1 38.4 + - - +
362A GLY* 3.7 29.4 - - - -
363A VAL 4.9 1.2 + - - +
489A PHE* 4.6 1.6 - - - -
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Residues in contact with TYR 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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144A ASN* 2.9 40.2 + - - +
145A ASP 5.0 1.2 - - - +
147A THR* 1.3 96.6 - - + +
149A GLN* 1.3 60.3 + - - +
150A ARG* 2.9 44.4 + - + +
355A ARG* 5.6 1.8 - - - -
361A ARG* 6.4 1.8 - - - -
362A GLY* 3.9 18.5 + - - -
364A GLN* 5.6 8.6 + - + +
489A PHE* 4.5 5.4 - - - -
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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