Contacts of the strand formed by residues 139 - 151 (chain G) in PDB entry 6A3V
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 GLY 139 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138G ALA* 1.3 78.3 - - - +
140G VAL* 1.3 65.4 + - - -
141G TYR* 3.4 18.4 - - - -
205G HIS* 3.8 5.7 + - - -
206G LEU 2.9 27.9 + - - -
239G ARG* 4.0 11.4 - - - -
241G THR* 4.5 4.3 - - - -
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Residues in contact with VAL 140 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139G GLY* 1.3 73.7 - - - -
141G TYR* 1.3 62.3 + - - +
203G LEU* 4.4 25.8 - - + -
204G LEU 3.7 9.4 - - - +
205G HIS* 4.1 20.2 - - + +
239G ARG* 3.7 2.3 - - - +
240G VAL* 2.8 35.7 + - + -
241G THR* 3.2 25.6 + - - +
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Residues in contact with TYR 141 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91G MET* 3.6 30.0 - - + +
124G LEU* 4.8 0.4 - - + -
135G VAL* 3.3 21.3 - - + +
137G LYS 2.8 20.4 + - - -
139G GLY* 3.4 35.0 - - - -
140G VAL* 1.3 74.8 - - - +
142G TYR* 1.3 60.2 + - - +
143G VAL* 3.8 3.0 + - + -
203G LEU* 3.5 5.4 - - - -
204G LEU* 2.8 37.3 + - - +
206G LEU* 3.6 19.3 - - + -
237G LEU* 3.4 41.1 - - + -
238G PHE 3.3 4.9 - - - +
239G ARG* 3.4 36.4 + - + -
240G VAL* 4.7 0.2 - - - -
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Residues in contact with TYR 142 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141G TYR* 1.3 70.7 - - - +
143G VAL* 1.3 60.3 + - - +
144G PHE* 3.8 24.2 + + + -
199G PHE* 4.3 10.7 - - - -
201G GLY* 4.2 9.9 + - - -
202G ARG* 3.6 30.5 - - - -
203G LEU* 3.7 21.8 - - + -
237G LEU* 3.5 3.5 - - - -
238G PHE* 2.7 72.9 + + + +
240G VAL* 4.2 4.3 - - + +
142I TYR* 3.8 20.4 + + - -
199I PHE* 5.6 1.2 - - - -
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Residues in contact with VAL 143 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141G TYR* 4.3 11.0 - - + +
142G TYR* 1.3 77.0 - - - +
144G PHE* 1.3 62.5 + - - +
165G LEU* 3.9 16.8 - - + -
179G LEU* 4.1 11.6 - - + +
201G GLY* 3.2 18.9 - - - -
202G ARG 3.2 12.7 + - - +
204G LEU* 4.1 26.0 - - + -
206G LEU* 5.1 1.1 - - + -
212G LEU* 4.4 8.1 - - + -
235G LEU* 3.6 27.4 - - + -
236G GLY 3.7 7.2 - - - +
237G LEU* 3.7 25.8 - - + -
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Residues in contact with PHE 144 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94G GLN* 3.9 4.7 - - - -
142G TYR* 3.8 27.4 - + + -
143G VAL* 1.3 75.4 - - - +
145G PHE* 1.3 62.6 + - - +
146G GLN* 4.3 8.7 - - - -
179G LEU* 5.1 0.2 - - - -
199G PHE* 3.6 25.8 - + + -
200G GLN 3.1 5.8 - - - +
201G GLY* 4.2 1.6 - - - -
234G VAL* 4.4 0.7 - - + -
235G LEU* 3.6 11.2 - - - +
236G GLY* 3.4 50.1 + - - -
237G LEU 4.0 2.9 - - - -
238G PHE* 4.2 7.9 - + - -
142I TYR* 3.7 13.7 - + - -
201I GLY 4.0 11.7 - - - -
202I ARG* 3.8 18.4 - - - -
203I LEU* 3.8 30.5 - - + -
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Residues in contact with PHE 145 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109G TRP* 5.5 1.3 - + - -
144G PHE* 1.3 76.3 - - - +
146G GLN* 1.3 61.9 + - - +
163G LEU* 3.7 24.9 - - + -
164G ALA 3.8 14.6 - - - -
165G LEU* 3.6 27.4 - - + -
179G LEU* 3.4 37.7 - - + -
180G ALA* 4.0 15.3 - - - -
181G LEU* 3.8 19.5 - - + -
199G PHE* 3.2 26.9 - - - -
200G GLN* 2.4 34.2 + - + +
214G VAL* 3.8 27.8 - - + -
234G VAL 3.8 3.4 - - - -
235G LEU* 4.6 9.6 - - + -
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Residues in contact with GLN 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144G PHE* 4.3 3.0 - - - -
145G PHE* 1.3 80.7 - - - +
147G LEU* 1.3 60.3 + - - +
148G GLU 4.3 0.4 - - - -
163G LEU* 4.1 5.9 - - - +
197G PHE* 4.2 4.7 - - + -
198G GLY 4.0 2.9 - - - -
199G PHE* 4.0 6.5 - - + -
232G ALA* 3.7 13.5 - - - +
233G THR* 3.3 22.7 - - - +
234G VAL* 3.0 45.8 + - - +
200I GLN* 2.7 44.4 + - - +
201I GLY 3.4 5.5 + - - -
202I ARG* 3.2 37.7 + - - +
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Residues in contact with LEU 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146G GLN* 1.3 74.0 - - - +
148G GLU* 1.3 60.6 + - - +
149G LEU* 3.7 18.8 - - + -
161G VAL* 4.0 24.5 - - + +
163G LEU* 3.7 37.9 - - + +
181G LEU* 4.8 6.5 - - + +
183G VAL* 3.7 32.1 - - + +
196G ALA 3.9 0.3 - - - +
197G PHE* 3.2 9.4 - - - -
198G GLY 3.2 30.7 + - - +
228G LEU* 3.6 30.7 - - + -
232G ALA 4.9 0.2 - - - -
233G THR* 4.1 4.0 - - + -
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Residues in contact with GLU 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146G GLN 4.3 0.4 - - - -
147G LEU* 1.3 75.8 - - - +
149G LEU* 1.3 68.5 + - - +
150G ARG* 5.9 0.3 - - - +
195G SER* 5.1 9.6 + - - -
196G ALA 3.4 10.5 - - - +
197G PHE* 4.3 17.7 - - + -
228G LEU* 3.6 5.5 - - - +
229G THR* 2.8 38.7 + - - +
232G ALA* 3.1 35.5 + - + +
233G THR* 3.8 10.6 + - - -
180I ALA* 5.3 11.4 - - - +
200I GLN* 5.2 5.7 + - - -
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Residues in contact with LEU 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102G LEU* 3.9 27.4 - - + -
147G LEU* 3.7 31.6 - - + -
148G GLU* 1.3 78.3 - - - +
150G ARG* 1.3 59.3 + - - +
161G VAL* 3.6 30.7 - - + -
183G VAL* 3.9 22.7 - - + -
185G LEU* 4.1 9.0 - - + -
195G SER* 3.3 7.6 - - - -
196G ALA 3.1 29.3 + - - +
226G TRP* 3.5 18.0 - - + -
227G GLN 3.3 10.8 - - - +
228G LEU* 4.6 6.7 - - + -
229G THR* 3.7 2.2 - - - -
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Residues in contact with ARG 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100G VAL* 5.4 0.2 - - - +
148G GLU* 5.9 0.2 - - - +
149G LEU* 1.3 73.0 - - - +
151G ARG* 1.3 66.1 + - - +
152G VAL* 3.3 18.1 + - + +
194G ASN* 3.3 7.2 - - + +
195G SER* 4.7 5.8 - - - +
226G TRP* 3.7 3.1 - - - -
227G GLN* 2.9 39.4 + - - +
228G LEU 5.3 2.2 + - - -
229G THR* 3.3 33.4 - - - +
230G GLN* 4.9 8.0 - - - +
66H ARG* 4.0 21.7 - - - +
72H PHE* 3.9 7.7 - - - -
99H CYS 3.8 5.7 + - - -
100H SER* 2.5 47.6 + - - +
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Residues in contact with ARG 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150G ARG* 1.3 73.3 + - - +
152G VAL* 1.3 58.3 + - - +
153G VAL 3.2 27.4 - - - +
154G ALA* 4.2 8.3 - - - +
155G GLY 4.7 1.1 - - - +
156G GLU 2.7 30.5 + - - +
157G GLY 3.2 15.0 + - - -
186G PRO 2.4 29.7 + - - -
187G PRO 3.6 8.3 + - - -
188G ALA* 3.8 16.1 - - - +
193G ARG 2.9 25.5 + - - +
194G ASN* 2.8 35.8 + - - +
225G ALA 3.2 12.8 - - - +
226G TRP* 3.2 23.0 - - + +
100H SER 3.7 3.8 - - - +
101H MET* 3.1 20.6 - - - +
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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