Contacts of the strand formed by residues 150 - 159 (chain A) in PDB entry 6I53
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 ALA 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A HIS* 5.4 1.9 - - - +
149A ASP* 1.3 79.5 - - - +
151A HIS* 1.3 73.7 + - - +
219A LEU 3.4 17.5 - - - +
220A LYS* 3.8 10.3 - - + +
101G PHE* 3.6 34.9 - - + +
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Residues in contact with HIS 151 (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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139A CYS* 4.4 2.5 - - - -
140A PRO 4.6 2.7 - - - +
141A MET* 3.5 44.5 - - + +
142A HIS* 3.7 13.5 + + + -
143A LEU* 3.7 12.8 - - + +
149A ASP* 3.2 35.4 + - - -
150A ALA* 1.3 80.2 + - - +
152A ALA* 1.3 59.1 + - - +
153A CYS* 3.7 18.4 - - - -
191A TYR* 4.0 17.2 + - - -
217A PHE 3.7 0.7 - - - +
218A HIS* 3.4 2.3 - - - -
219A LEU* 2.7 42.0 + - + +
221A ARG* 4.0 10.3 - - - -
99G ALA* 6.4 1.6 - - - -
101G PHE* 3.7 7.2 - - - -
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Residues in contact with ALA 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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139A CYS* 4.5 2.4 - - - -
140A PRO* 5.6 1.4 - - - +
151A HIS* 1.3 72.8 - - - +
153A CYS* 1.3 62.4 + - - +
154A PRO* 3.3 9.2 - - - +
216A HIS* 3.9 14.8 + - + +
217A PHE 3.4 7.0 - - - -
218A HIS* 3.4 25.1 - - + +
99G ALA* 4.2 15.8 + - - +
100G GLY 3.7 19.5 - - - +
101G PHE* 4.3 2.4 - - - +
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Residues in contact with CYS 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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50A PHE* 4.9 3.6 - - + -
53A VAL* 5.2 4.5 - - - -
60A TYR* 3.6 26.4 + - + -
139A CYS* 2.0 44.0 - - - -
141A MET* 5.3 0.9 - - - -
151A HIS* 4.4 6.1 - - - -
152A ALA* 1.3 72.7 - - - +
154A PRO* 1.3 67.3 - - - +
215A THR 3.9 0.2 - - - +
216A HIS* 4.4 0.2 - - - -
217A PHE* 2.8 42.2 + - - +
219A LEU* 3.8 26.2 - - + -
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Residues in contact with PRO 154 (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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60A TYR* 2.3 29.4 + - - -
103A ASN* 3.4 27.2 + - - +
137A ALA* 4.3 0.2 - - - +
138A GLU 3.9 10.3 - - - +
139A CYS* 4.3 7.4 - - - -
140A PRO* 4.4 11.0 - - + -
152A ALA 3.3 8.5 - - - +
153A CYS* 1.3 83.3 - - - +
155A LEU* 1.3 55.0 + - - +
156A LYS* 3.9 24.0 - - + +
214A THR* 5.1 0.2 - - + -
215A THR 3.6 4.7 - - - +
216A HIS* 3.5 26.9 - - + +
52G ASP* 5.2 1.1 - - - +
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Residues in contact with LEU 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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45A ILE* 4.5 20.2 - - + -
60A TYR* 3.3 16.6 - - - +
62A ILE* 4.0 31.4 - - + -
64A VAL* 4.8 7.6 - - + -
101A PHE* 3.8 31.4 - - + -
103A ASN* 4.4 2.5 - - - +
135A VAL* 4.0 19.5 - - + -
137A ALA* 4.2 6.7 - - + -
154A PRO* 1.3 72.1 - - - +
156A LYS* 1.3 60.0 + - - +
157A PHE* 4.2 7.6 + - + -
213A MET 4.2 0.2 - - - +
214A THR* 3.8 1.4 - - - -
215A THR* 2.8 37.8 + - - +
217A PHE* 4.1 11.2 - - + -
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Residues in contact with LYS 156 (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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101A PHE* 3.4 6.4 - - - +
102A HIS* 2.7 44.4 + - + -
103A ASN* 3.8 30.1 + - - +
154A PRO* 3.9 19.0 - - + +
155A LEU* 1.3 78.6 - - - +
157A PHE* 1.3 55.6 + - - +
212A VAL* 4.3 5.4 - - + -
213A MET 3.3 8.1 - - - +
214A THR* 3.7 18.2 - - + +
52G ASP* 3.1 24.9 + - - +
53G GLN* 6.1 0.2 - - - +
54G GLY* 4.7 7.5 - - - +
56G ILE* 3.5 29.2 - - + +
58G TYR* 3.7 14.8 - - - +
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Residues in contact with PHE 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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43A THR* 3.8 18.8 - - + -
45A ILE* 3.6 22.4 - - + -
66A PHE* 3.5 35.9 - + - -
99A THR* 3.6 12.1 - - + -
100A PHE 3.3 14.4 - - - +
101A PHE* 3.6 23.3 - + + -
102A HIS* 3.6 6.5 - - - -
155A LEU* 4.4 9.9 - - + -
156A LYS* 1.3 75.4 - - - +
158A GLY* 1.3 59.6 + - - +
169A TYR* 4.7 4.0 - + - -
171A TRP* 3.6 22.0 - + - -
212A VAL* 3.6 2.4 - - - -
213A MET* 2.9 60.0 + - + +
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Residues in contact with GLY 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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99A THR* 3.4 4.3 - - - +
100A PHE* 3.0 31.0 + - - +
102A HIS* 3.6 10.4 + - - -
157A PHE* 1.3 81.0 - - - +
159A SER* 1.3 65.8 + - - -
169A TYR* 3.9 10.8 - - - -
210A TYR* 6.3 0.2 - - - -
211A VAL 3.7 14.6 - - - -
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Residues in contact with SER 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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97A PRO* 6.2 0.2 - - - -
98A ASP* 2.9 24.2 + - - -
100A PHE* 3.4 8.0 - - - -
102A HIS* 4.8 2.1 - - - -
158A GLY* 1.3 76.4 - - - -
160A TYR* 1.3 59.8 + - - +
162A TYR* 3.1 38.8 + - - +
167A VAL* 4.7 5.6 - - - -
169A TYR* 3.3 28.2 - - - -
210A TYR* 3.8 19.6 - - - +
211A VAL 4.2 3.8 + - - -
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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