Contacts of the strand formed by residues 151 - 163 (chain A) in PDB entry 6ZGI
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 SER 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145A TYR* 3.5 7.5 - - - -
146A HIS* 3.4 33.2 + - - -
149A ASN* 3.0 11.5 + - - -
150A LYS* 1.3 76.1 - - - +
152A TRP* 1.3 72.0 + - - +
153A MET* 4.1 7.2 - - - +
1305A NAG 3.1 28.7 + - - -
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Residues in contact with TRP 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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143A VAL* 4.0 12.6 - - + -
144A TYR 3.7 4.3 - - - -
145A TYR* 3.5 54.4 - + + -
150A LYS* 5.3 1.1 - - - +
151A SER* 1.3 85.3 + - - +
153A MET* 1.3 60.2 + - - +
178A ASP 4.8 3.7 - - - +
179A LEU* 3.6 38.3 - - - +
180A GLU* 4.0 24.8 - - + +
181A GLY* 3.9 20.6 - - - -
245A HIS* 3.4 41.1 - + + -
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Residues in contact with MET 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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143A VAL* 3.6 5.0 - - - +
144A TYR* 2.9 29.1 + - - +
146A HIS* 3.4 33.7 - - + +
151A SER* 4.1 5.8 - - - +
152A TRP* 1.3 73.6 - - - +
154A GLU* 1.3 63.6 + - - +
155A SER* 3.5 9.4 + - - +
179A LEU* 4.3 4.9 - - - -
1305A NAG 3.5 51.4 - - - +
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Residues in contact with GLU 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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102A ARG* 3.3 22.3 + - - +
122A ASN* 4.1 11.6 - - - +
123A ALA* 2.9 42.4 + - + +
141A LEU* 3.9 16.1 - - - +
142A GLY 3.6 13.0 - - - +
143A VAL* 4.4 5.6 - - + +
153A MET* 1.3 76.1 - - - +
155A SER* 1.3 63.7 + - - +
156A GLU 3.9 16.8 - - - +
157A PHE* 4.4 4.7 - - - +
179A LEU* 4.1 9.3 - - + +
1E NAG 5.0 14.3 - - + +
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Residues in contact with SER 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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142A GLY 2.8 12.4 + - - -
144A TYR* 3.4 29.6 - - - +
146A HIS* 5.8 0.2 - - - -
153A MET* 3.5 9.0 + - - +
154A GLU* 1.3 75.5 + - - +
156A GLU* 1.3 67.5 + - - +
157A PHE 4.2 0.5 + - - -
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Residues in contact with GLU 156 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140A PHE* 3.8 11.7 - - + -
141A LEU* 3.5 8.4 - - - +
142A GLY* 2.9 45.3 + - - +
154A GLU* 3.9 7.5 - - - +
155A SER* 1.3 86.4 - - - +
157A PHE* 1.3 61.4 + - - +
158A ARG* 3.3 44.8 + - + +
244A LEU* 5.2 1.0 - - - +
246A ARG* 3.1 44.9 + - - +
254A SER* 5.5 0.9 - - - -
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Residues in contact with PHE 157 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A GLN 6.0 0.2 + - - -
118A LEU* 5.0 4.3 - - + -
120A VAL* 4.2 30.3 - - + -
122A ASN* 4.5 15.9 - - + -
141A LEU* 3.3 26.7 - - + -
154A GLU* 4.4 8.3 - - - +
155A SER 4.2 0.8 + - - -
156A GLU* 1.3 73.3 - - - +
158A ARG* 1.3 63.0 + - - +
159A VAL* 3.7 28.3 + - + -
160A TYR* 4.1 25.2 - + - +
1E NAG 5.7 4.0 - - - +
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Residues in contact with ARG 158 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A GLN* 3.2 47.0 + - - +
15A CYS* 5.2 1.1 - - - -
16A VAL* 4.0 32.0 - - + +
136A CYS* 4.2 8.7 - - - -
138A ASP 4.3 1.0 - - - +
139A PRO* 3.2 6.6 - - - +
140A PHE* 2.9 51.2 + - + +
156A GLU* 3.3 34.9 + - + +
157A PHE* 1.3 78.8 + - - +
159A VAL* 1.3 59.6 + - - +
160A TYR 5.8 0.4 - - - -
254A SER* 5.6 4.8 + - - -
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Residues in contact with VAL 159 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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105A ILE* 4.7 2.0 - - + -
118A LEU* 4.3 7.6 - - + -
135A PHE* 3.4 29.4 - - + +
136A CYS* 2.8 27.8 + - - +
139A PRO* 4.0 15.0 - - + +
140A PHE 4.0 10.8 - - - +
141A LEU* 4.5 3.8 - - + -
157A PHE* 3.7 36.5 + - + -
158A ARG* 1.3 79.7 - - - +
160A TYR* 1.3 67.1 + - + +
241A LEU* 4.1 29.4 - - + -
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Residues in contact with TYR 160 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A GLN 5.4 5.4 + - - -
15A CYS* 5.1 0.2 - - - -
118A LEU* 4.2 12.6 - - + -
129A LYS* 4.1 14.7 + - - +
133A PHE* 3.7 32.5 - + + -
134A GLN 3.5 13.9 - - - +
135A PHE* 3.9 13.2 - + + +
136A CYS* 4.2 6.5 - - - +
157A PHE* 4.1 23.0 - + - +
159A VAL* 1.3 91.6 + - + +
161A SER* 1.3 65.3 + - - +
162A SER* 3.9 16.4 - - - +
163A ALA* 4.5 13.2 - - + +
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Residues in contact with SER 161 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A GLN* 6.0 3.7 - - - +
15A CYS* 3.8 19.5 - - - -
134A GLN* 2.9 29.4 + - - +
135A PHE 5.4 0.2 - - - -
136A CYS* 4.8 0.2 - - - -
160A TYR* 1.3 79.4 - - - +
162A SER* 1.3 62.7 + - - +
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Residues in contact with SER 162 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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112A SER* 5.7 1.6 - - - -
132A GLU 3.6 2.2 + - - +
133A PHE* 3.4 4.5 - - - +
134A GLN* 3.1 37.7 + - - +
160A TYR* 3.7 6.2 - - - -
161A SER* 1.3 79.3 - - - +
163A ALA* 1.3 61.9 + - - +
164A ASN* 4.3 1.6 - - - -
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Residues in contact with ALA 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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129A LYS* 4.9 5.6 - - - +
131A CYS* 4.1 11.9 - - + -
132A GLU 3.6 5.8 - - - -
133A PHE* 3.4 33.4 - - + -
160A TYR* 4.4 9.8 - - + -
162A SER* 1.3 75.1 - - - +
164A ASN* 1.3 64.6 + - - +
166A CYS* 4.6 4.6 - - - -
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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