Contacts of the helix formed by residues 151 - 170 (chain A) in PDB entry 5A19
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 PRO 151 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A TYR* 4.0 14.8 - - + -
143A THR* 3.5 6.3 - - + -
145A GLU* 3.4 11.4 - - - +
150A MET* 1.3 92.6 - - + +
152A LEU* 1.3 65.2 + - - +
153A THR* 3.3 4.2 + - - +
154A ILE* 3.3 12.4 - - + +
155A VAL* 3.2 23.4 + - - +
271A TYR* 3.9 6.7 - - + +
274A TRP* 3.3 56.5 - - + +
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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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145A GLU* 3.0 16.9 + - - +
146A THR* 3.9 22.9 - - + -
150A MET 3.5 1.8 + - - -
151A PRO* 1.3 71.5 - - - +
153A THR* 1.3 64.4 + - - +
155A VAL* 4.4 6.5 - - + -
156A LEU* 2.9 55.3 + - + +
186A VAL* 4.4 11.9 - - + -
188A TYR* 4.0 4.5 - - - +
197A PRO* 3.8 26.5 - - + -
200A VAL* 5.3 0.4 - - + -
232A PRO* 5.8 1.6 - - + -
235A TYR* 3.7 37.9 - - + +
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Residues in contact with THR 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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20A PHE 3.3 28.7 - - - +
22A SER* 2.6 31.6 + - - -
151A PRO* 3.9 0.3 - - - +
152A LEU* 1.3 77.9 - - - +
154A ILE* 1.3 59.0 + - - +
157A ALA* 3.2 26.5 + - - +
184A VAL* 3.6 18.2 - - - +
186A VAL* 3.6 29.6 - - + -
188A TYR* 3.8 12.6 - - + +
274A TRP* 3.1 17.9 + - - +
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Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A SER* 3.9 11.2 - - - +
23A GLU 3.0 30.7 - - - +
24A SER* 4.6 0.2 - - - -
150A MET* 4.2 14.6 - - + -
151A PRO* 3.3 33.9 - - + +
153A THR* 1.3 78.2 + - - +
155A VAL* 1.3 65.5 + - + +
157A ALA* 4.3 0.4 - - + -
158A HIS* 2.9 63.0 + - + +
268A VAL* 4.3 8.3 - - - +
270A THR 4.6 3.1 - - - +
271A TYR 4.2 4.3 - - - +
272A GLY* 4.0 24.9 - - - +
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Residues in contact with VAL 155 (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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146A THR* 4.7 3.4 - - + +
148A GLU* 3.5 30.5 - - + +
150A MET* 3.4 30.3 - - + +
151A PRO 3.2 18.7 + - - +
152A LEU* 3.9 10.5 - - + +
154A ILE* 1.3 79.7 - - + +
156A LEU* 1.3 61.9 + - + +
158A HIS* 3.4 4.0 + - + +
159A LYS* 3.0 50.5 + - + +
381A GLY* 6.1 0.2 - - - -
402A PEG 4.1 14.1 + - - +
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Residues in contact with LEU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A LEU* 2.9 50.8 + - + +
153A THR 4.1 2.5 - - - +
155A VAL* 1.3 73.9 - - + +
157A ALA* 1.3 68.2 + - - +
159A LYS* 3.2 11.4 + - + +
160A LEU* 2.9 30.1 + - + +
184A VAL* 4.1 17.0 - - + -
186A VAL* 4.8 0.4 - - + -
200A VAL* 4.0 26.7 - - + -
230A VAL* 4.1 9.3 - - + +
231A VAL* 4.2 23.3 - - + -
232A PRO* 4.2 23.6 - - + -
235A TYR* 5.3 0.4 - - + -
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Residues in contact with ALA 157 (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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22A SER 4.2 5.2 - - - +
23A GLU* 3.9 6.7 - - - -
24A SER* 3.6 21.3 - - - +
153A THR 3.2 17.7 + - - +
154A ILE* 3.6 6.7 - - - +
156A LEU* 1.3 80.2 - - - +
158A HIS* 1.3 61.3 + - - +
160A LEU* 3.4 2.2 + - - +
161A ASN* 3.2 13.0 + - - -
182A THR* 2.8 28.6 + - - +
184A VAL* 3.7 15.3 - - + +
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Residues in contact with HIS 158 (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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24A SER* 2.8 30.5 + - - -
150A MET* 5.7 3.3 - - + +
154A ILE* 2.9 45.3 + - + +
155A VAL* 3.6 3.1 - - + +
157A ALA* 1.3 76.6 - - - +
159A LYS* 1.3 58.0 + - - +
161A ASN* 3.2 6.8 + - - +
162A ALA* 2.9 26.0 + - - +
268A VAL* 3.1 32.9 + - + -
270A THR 5.1 2.4 + - - -
377A TYR* 3.4 37.2 + - - +
378A GLY* 3.6 6.5 - - - -
380A PHE 5.3 4.0 + - - -
402A PEG 3.6 28.0 - - - -
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Residues in contact with LYS 159 (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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148A GLU* 3.8 16.0 + - - -
155A VAL* 3.0 36.4 + - + +
156A LEU* 3.2 7.7 + - + +
158A HIS* 1.3 75.8 - - - +
160A LEU* 1.3 60.4 + - - +
162A ALA* 3.7 7.8 - - - +
163A LYS* 2.9 30.3 + - - +
230A VAL* 3.7 27.1 - - + +
402A PEG 4.0 32.3 - - - +
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Residues in contact with LEU 160 (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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156A LEU 2.9 21.0 + - - +
157A ALA 3.7 4.7 - - - +
158A HIS 3.2 0.4 - - - -
159A LYS* 1.3 75.2 - - - +
161A ASN* 1.3 57.1 + - - +
163A LYS* 3.4 3.3 + - - +
164A LEU* 3.0 32.4 + - - +
182A THR* 3.7 21.8 - - + -
184A VAL* 3.8 24.0 - - + -
203A ILE* 4.1 22.7 - - + -
205A ILE* 4.5 2.7 - - + -
226A VAL* 3.8 21.5 - - + +
227A ILE* 3.9 19.5 - - + -
230A VAL* 3.8 27.1 - - + -
231A VAL* 4.6 6.5 - - + -
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Residues in contact with ASN 161 (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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24A SER* 3.2 27.7 + - - +
25A VAL 3.6 9.4 - - - +
26A GLY* 3.4 11.4 + - - -
157A ALA 3.2 7.9 + - - -
158A HIS 3.2 6.8 + - - +
160A LEU* 1.3 76.0 - - - +
162A ALA* 1.3 64.7 + - - +
164A LEU* 3.3 7.8 + - - +
165A ALA* 3.1 21.8 + - - +
180A SER* 2.7 29.7 + - - -
182A THR* 2.9 36.4 + - - +
377A TYR* 3.7 14.7 - - + -
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Residues in contact with ALA 162 (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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158A HIS 2.9 16.0 + - - +
159A LYS* 3.7 7.0 - - - +
161A ASN* 1.3 74.8 - - - +
163A LYS* 1.3 57.2 + - - +
165A ALA* 3.3 4.2 + - - +
166A GLU* 3.0 28.2 + - - +
377A TYR* 3.4 25.2 - - + -
402A PEG 3.8 29.6 - - - +
407A PG4 5.7 2.2 - - - +
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Residues in contact with LYS 163 (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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159A LYS 2.9 18.0 + - - +
160A LEU 3.5 5.4 - - - +
161A ASN 3.3 0.2 - - - -
162A ALA* 1.3 74.3 - - - +
164A LEU* 1.3 64.7 + - - +
166A GLU* 3.2 33.3 + - - +
167A LEU* 3.1 42.5 + - + +
225A LYS 3.9 11.2 + - - +
226A VAL* 3.9 22.2 - - + -
229A ALA* 4.2 17.7 + - - +
230A VAL* 3.6 25.1 - - + -
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Residues in contact with LEU 164 (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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160A LEU 3.0 22.2 + - - +
161A ASN* 3.6 13.2 - - - +
162A ALA 3.3 0.2 - - - -
163A LYS* 1.3 78.0 - - - +
165A ALA* 1.3 56.4 + - - +
167A LEU* 3.4 1.3 + - - -
168A ARG* 3.0 25.9 + - - +
176A LEU* 3.4 35.1 - - + +
180A SER* 3.8 31.0 - - - +
182A THR* 4.5 2.2 - - + -
205A ILE* 4.1 19.5 - - + -
207A VAL* 4.3 4.5 - - + -
222A LEU* 3.6 28.5 - - + -
226A VAL* 3.8 17.5 - - + -
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Residues in contact with ALA 165 (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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27A GLU* 4.2 1.1 - - + +
161A ASN 3.1 8.2 + - - +
162A ALA 3.6 6.1 - - - +
163A LYS 3.3 0.2 - - - -
164A LEU* 1.3 77.5 - - - +
166A GLU* 1.3 57.0 + - - +
168A ARG* 3.5 19.0 + - - +
169A ARG* 2.9 54.3 + - - +
377A TYR* 3.4 25.8 - - - +
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Residues in contact with GLU 166 (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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162A ALA 3.0 12.9 + - - +
163A LYS* 3.2 43.3 + - - +
164A LEU 3.3 0.2 - - - -
165A ALA* 1.3 77.2 - - - +
167A LEU* 1.3 60.2 + - - +
169A ARG* 3.4 3.7 + - - +
170A ASN* 2.9 50.1 + - + +
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Residues in contact with LEU 167 (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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163A LYS* 3.1 31.2 + - + +
164A LEU* 4.0 3.4 - - - +
166A GLU* 1.3 80.1 - - - +
168A ARG* 1.3 64.0 + - - +
170A ASN* 3.3 10.4 - - - +
171A GLY 3.4 0.2 + - - -
172A THR* 3.0 51.7 + - + +
173A LEU* 3.1 38.1 + - + -
176A LEU* 4.3 1.6 - - + -
225A LYS* 3.8 31.2 - - + +
226A VAL* 4.1 9.6 - - + -
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Residues in contact with ARG 168 (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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27A GLU* 5.1 5.5 - - - +
90A ILE 3.1 27.8 + - - -
91A GLY* 4.0 11.7 + - - -
164A LEU 3.0 18.0 + - - +
165A ALA* 3.6 17.5 - - - +
167A LEU* 1.3 75.6 - - - +
169A ARG* 1.3 95.4 + - - +
171A GLY* 3.4 12.1 + - - -
173A LEU 4.1 11.0 - - - +
174A PRO* 5.2 3.7 - - - +
176A LEU* 3.4 32.9 - - + +
177A ARG* 3.6 17.6 + - - +
178A PRO* 3.6 24.5 + - - +
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Residues in contact with ARG 169 (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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27A GLU* 2.9 41.8 + - - -
89A HIS* 2.9 40.3 + - - -
90A ILE 3.6 10.9 + - - -
165A ALA* 2.9 33.4 + - - +
166A GLU* 4.0 4.0 - - - +
168A ARG* 1.3 98.7 - - - +
170A ASN* 1.3 59.5 + - - +
171A GLY 3.4 0.7 + - - -
407A PG4 5.5 3.2 + - - -
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Residues in contact with ASN 170 (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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166A GLU* 2.9 44.1 + - + +
167A LEU* 3.3 7.1 - - - +
169A ARG* 1.3 76.1 - - + +
171A GLY* 1.3 58.8 + - - +
172A THR* 2.6 32.9 + - - -
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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
------------------------------------------------------------
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