Contacts of the strand formed by residues 145 - 158 (chain B) in PDB entry 3AA6
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 LYS 145 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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138B GLY 6.0 0.2 - - - -
140B GLY* 5.0 4.3 - - - -
143B LYS 5.1 3.4 - - - +
144B ILE* 1.3 77.5 - - - +
146B GLY* 1.3 57.4 + - - +
176B TRP 3.8 0.7 - - - +
177B LEU* 3.3 5.7 - - - -
178B GLN* 2.9 70.8 + - + +
179B THR* 5.7 0.7 - - - -
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Residues in contact with GLY 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254A THR* 4.0 20.3 - - - +
258A LEU* 4.1 4.3 - - - -
137B ALA* 3.6 3.8 - - - +
138B GLY* 2.9 31.1 + - - +
144B ILE 3.8 2.6 + - - -
145B LYS* 1.3 75.6 - - - +
147B CYS* 1.3 63.1 + - - +
176B TRP* 3.2 8.3 - - - -
177B LEU* 4.3 1.6 - - - -
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Residues in contact with CYS 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258A LEU* 4.1 6.3 - - - +
135B LYS* 2.8 45.5 - - - -
136B LYS 3.4 14.6 - - - -
137B ALA* 4.3 7.6 - - + -
146B GLY* 1.3 75.7 - - - +
148B TRP* 1.3 61.6 + - - +
149B ASP* 4.6 0.4 - - - -
175B LEU* 3.5 6.8 - - - +
176B TRP* 2.9 48.6 + - + +
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Residues in contact with TRP 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255A PHE* 3.8 30.1 - + - -
258A LEU* 4.3 18.2 - - + -
259A ARG* 3.8 35.0 - - + -
112B PHE* 3.6 23.0 - + + -
134B ILE 4.3 3.6 - - - -
135B LYS* 3.4 7.4 - - - +
136B LYS* 2.8 45.4 + - + +
147B CYS* 1.3 73.8 - - - +
149B ASP* 1.3 72.0 + - - +
150B SER* 2.7 22.1 + - - -
173B VAL* 3.5 20.9 - - + +
174B MET 3.4 5.2 - - - -
175B LEU* 4.5 7.9 - - + +
221B GLU* 4.1 15.7 - - + -
225B ARG* 4.0 20.4 - - + -
228B LEU* 3.8 16.4 - - + -
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Residues in contact with ASP 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B PRO* 4.2 3.8 - - - +
47B LEU* 3.0 34.1 + - + +
134B ILE 3.3 4.9 - - - -
135B LYS* 2.6 36.2 + - - +
148B TRP* 1.3 76.3 - - - +
150B SER* 1.3 58.8 + - - +
151B ILE* 5.1 2.7 - - + -
172B THR 3.9 0.3 - - - +
173B VAL* 3.2 6.4 - - - +
174B MET* 2.8 48.2 + - + +
176B TRP* 3.0 31.0 + - - -
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Residues in contact with SER 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B LEU* 3.5 2.9 - - - +
132B ILE 4.2 0.2 - - - -
133B LEU* 3.4 6.8 - - - -
134B ILE* 2.8 40.6 + - - +
148B TRP* 2.7 22.5 + - - -
149B ASP* 1.3 73.0 - - - +
151B ILE* 1.3 66.5 + - - +
152B HIS* 3.6 13.8 + - - -
172B THR 3.6 4.7 - - - -
173B VAL* 4.0 4.7 - - - +
221B GLU* 2.6 31.1 + - - -
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B ASP* 3.9 33.9 - - + +
45B GLN 3.8 23.3 - - - +
47B LEU* 4.0 22.0 - - + -
62B CYS* 5.7 3.4 - - + -
64B TYR* 4.7 6.1 - - + -
131B VAL* 4.0 9.9 - - + -
132B ILE 3.8 2.7 - - - -
133B LEU* 3.9 13.2 - - + -
149B ASP* 5.1 2.2 - - + -
150B SER* 1.3 80.2 - - - +
152B HIS* 1.3 61.2 + - - +
153B VAL* 4.1 11.9 - - + -
170B THR 3.7 2.6 - - - +
171B SER* 3.3 2.4 - - - -
172B THR* 2.8 46.7 + - + +
174B MET* 4.2 8.7 - - + -
493C ARG* 4.3 2.6 + - - +
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Residues in contact with HIS 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130B GLY 3.8 0.5 - - - +
131B VAL* 3.1 4.2 - - - -
132B ILE* 2.8 61.9 + - + +
134B ILE* 4.8 2.0 - - + -
150B SER* 3.6 14.2 - - - -
151B ILE* 1.3 73.8 - - - +
153B VAL* 1.3 61.3 + - - +
169B LEU* 3.9 11.3 - - + +
170B THR 3.9 3.1 - - - -
171B SER* 2.8 32.1 + - - -
173B VAL* 4.9 5.8 - - + -
217B VAL* 3.7 29.9 - - + +
220B MET* 4.6 0.6 - - + +
221B GLU* 2.8 50.1 + - + -
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Residues in contact with VAL 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64B TYR* 3.8 41.7 - - + +
122B TRP* 4.4 5.4 - - + -
130B GLY 3.3 8.7 - - - +
131B VAL* 3.9 10.3 - - + -
151B ILE* 4.1 4.7 - - + -
152B HIS* 1.3 75.3 - - - +
154B VAL* 1.3 62.6 + - - +
168B LYS 3.5 1.4 - - - +
169B LEU* 3.4 2.9 - - - +
170B THR* 2.8 41.9 + - - +
493C ARG* 3.9 23.8 - - + +
494C PRO* 3.7 32.6 - - + +
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Residues in contact with VAL 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121B LEU* 5.8 0.7 - - + -
128B PHE* 5.6 0.9 - - + -
129B ALA* 3.1 7.7 - - - +
130B GLY* 2.9 50.6 + - - +
132B ILE* 4.3 7.2 - - + -
152B HIS 4.1 0.2 + - - -
153B VAL* 1.3 74.6 - - - +
155B GLU* 1.3 70.0 + - - +
156B VAL* 4.2 13.9 - - + -
167B TYR* 4.4 9.2 - - + -
168B LYS 3.3 14.1 - - - +
169B LEU* 4.3 14.1 - - + -
213B ILE* 4.3 39.0 - - + -
216B LEU* 5.2 3.1 - - + -
494C PRO* 3.9 3.3 - - - +
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Residues in contact with GLU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B LEU* 3.8 19.0 - - + +
128B PHE 3.8 2.7 - - - -
129B ALA* 4.4 0.2 - - - -
154B VAL* 1.3 74.1 - - - +
156B VAL* 1.3 63.0 + - - +
157B GLN* 4.0 26.2 + - + +
166B HIS 3.5 1.6 - - - +
167B TYR* 3.4 5.0 - - - -
168B LYS* 3.0 56.3 + - + +
492C ASN 5.1 3.3 - - - +
494C PRO* 3.8 31.7 - - + +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B GLY* 3.4 2.9 - - - -
128B PHE* 2.7 75.8 + - + +
154B VAL* 4.2 12.1 - - + -
155B GLU* 1.3 75.2 - - - +
157B GLN* 1.3 68.7 + - - +
158B GLU* 4.3 4.3 - - + -
165B ALA* 3.9 9.6 - - + -
166B HIS 3.3 2.7 - - - +
167B TYR* 3.8 28.5 - - + -
209B HIS* 3.7 29.6 - - + -
213B ILE* 4.3 3.4 - - + -
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Residues in contact with GLN 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B LEU* 3.6 31.9 - - - +
126B HIS* 3.6 30.0 + - + +
155B GLU* 4.0 20.3 + - + +
156B VAL* 1.3 87.8 + - - +
158B GLU* 1.3 62.9 + - - +
159B LYS* 3.8 12.3 - - - -
165B ALA* 3.3 6.4 - - - -
166B HIS* 2.8 48.2 + - + +
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Residues in contact with GLU 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92B ARG* 2.7 44.3 + - - -
126B HIS* 2.8 28.8 + - - +
127B GLY* 3.5 18.7 - - - -
128B PHE* 3.9 5.1 - - + -
156B VAL* 3.7 9.4 + - + -
157B GLN* 1.3 76.7 - - - +
159B LYS* 1.3 69.3 + - - +
162B GLY* 6.3 0.7 - - - -
164B THR 4.7 0.2 - - - -
165B ALA* 4.6 3.8 - - + -
209B HIS* 3.0 26.7 + - + +
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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
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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