Contacts of the strand formed by residues 150 - 164 (chain A) in PDB entry 2ZNZ
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 VAL 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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93A VAL* 4.1 15.0 - - + -
94A LYS 3.8 2.5 - - - -
95A VAL* 4.9 0.2 - - - +
103A VAL* 3.8 19.7 - - + -
107A LEU* 5.7 0.2 - - + -
144A ILE* 3.5 32.1 - - + +
145A GLY* 3.8 19.0 - - - +
147A ILE* 3.1 38.1 + - + +
148A PRO 3.4 0.4 - - - -
149A GLY* 1.3 75.7 + - - +
151A GLU* 1.3 67.0 + - - +
152A GLY 3.9 21.1 - - - +
153A THR* 4.3 2.2 - - + -
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Residues in contact with GLU 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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94A LYS* 2.8 26.1 + - + +
95A VAL 4.5 0.7 - - - -
96A LYS* 3.8 48.7 + - + +
149A GLY 4.8 1.4 + - - -
150A VAL* 1.3 81.8 - - - +
152A GLY* 1.3 57.1 + - - +
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Residues in contact with GLY 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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93A VAL* 3.5 2.6 - - - +
94A LYS* 3.0 33.4 + - - +
123A TYR* 4.9 3.6 - - - -
145A GLY* 6.5 0.2 - - - -
150A VAL* 3.6 5.1 - - - +
151A GLU* 1.3 81.3 - - - +
153A THR* 1.3 70.5 + - - +
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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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91A ILE* 3.6 24.2 - - + -
92A LEU 3.2 5.6 - - - +
93A VAL* 4.4 3.6 - - + -
123A TYR* 4.5 4.3 + - - -
141A LEU* 3.9 10.6 + - + +
144A ILE* 3.8 25.4 - - + -
145A GLY* 5.1 4.8 - - - +
150A VAL* 4.3 6.1 - - + -
152A GLY* 1.3 80.2 - - - +
154A HIS* 1.3 62.6 + - - +
172A LYS* 2.8 45.8 + - - +
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Residues in contact with HIS 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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90A PHE 3.9 0.3 - - - +
91A ILE* 3.7 0.2 - - - -
92A LEU* 2.7 53.1 + - + +
123A TYR* 3.3 44.4 - + + +
153A THR* 1.3 75.1 - - - +
155A THR* 1.3 69.6 + - - +
156A MET* 4.8 9.4 - - + +
172A LYS 3.8 3.5 + - - -
121B GLY* 5.6 9.4 - - - -
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Residues in contact with THR 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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89A ALA* 3.8 22.4 - - + -
90A PHE 3.4 9.4 - - - +
91A ILE* 3.8 9.7 - - + +
137A LEU* 4.3 10.8 - - + -
141A LEU* 3.4 22.5 - - + +
154A HIS* 1.3 81.4 + - - +
156A MET* 1.3 64.9 + - - +
157A ILE* 4.1 15.9 + - + +
172A LYS* 2.6 35.4 + - - +
120B THR* 4.1 5.0 + - - -
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Residues in contact with MET 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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89A ALA* 3.4 0.9 - - - -
90A PHE* 2.7 50.9 + - + +
92A LEU* 4.2 29.6 - - + -
154A HIS* 4.8 13.9 - - + +
155A THR* 1.3 75.2 - - - +
157A ILE* 1.3 65.7 + - - +
158A VAL* 3.7 0.5 + - - +
92B LEU* 3.5 34.8 - - + -
119B THR* 3.7 18.8 - - + +
120B THR* 3.6 21.1 - - - +
121B GLY* 5.5 2.9 - - - -
123B TYR* 5.1 9.2 - - + +
126B VAL* 3.6 17.0 - - + -
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Residues in contact with ILE 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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87A MET* 4.1 24.9 - - + -
88A LEU 3.9 2.9 - - - -
89A ALA* 4.1 3.4 - - + -
134A SER* 5.6 3.4 - - - -
137A LEU* 3.8 31.0 - - + -
155A THR* 4.0 10.0 - - + +
156A MET* 1.3 73.5 - - - +
158A VAL* 1.3 73.7 + - - +
159A LEU* 3.4 12.5 + - + +
119B THR* 3.4 3.0 - - - -
120B THR* 3.0 39.7 + - + +
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Residues in contact with VAL 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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88A LEU* 2.9 50.9 + - + +
89A ALA* 4.6 0.2 - - - -
90A PHE* 4.0 28.7 - - + -
157A ILE* 1.3 80.5 - - - +
159A LEU* 1.3 63.1 + - - +
160A LYS* 3.9 12.1 - - - +
161A THR* 3.6 23.8 - - - +
117B TYR* 3.7 17.9 - - + -
118B GLU 3.5 7.4 - - - +
119B THR* 4.2 2.7 - - + -
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Residues in contact with LEU 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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157A ILE* 4.0 14.1 - - + +
158A VAL* 1.3 74.9 - - - +
160A LYS* 1.3 59.9 + - + +
118B GLU* 2.7 18.6 + - + +
119B THR* 3.8 8.5 - - - +
120B THR* 3.8 36.8 - - + +
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Residues in contact with LYS 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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158A VAL* 3.6 4.1 - - - +
159A LEU* 1.3 81.8 - - + +
161A THR* 1.3 73.7 + - - +
162A HIS* 3.5 32.3 + - + +
101B SER* 5.4 3.6 - - - -
117B TYR* 3.4 2.8 - - - -
118B GLU* 2.8 50.2 + - + +
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Residues in contact with THR 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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88A LEU* 4.1 5.5 - - - +
158A VAL* 3.6 8.7 - - - +
160A LYS* 1.3 85.8 + - - +
162A HIS* 1.3 62.5 + - - +
163A LYS 3.9 15.9 - - - +
164A GLU* 4.0 20.0 + - + +
116B VAL 3.8 3.4 - - - -
117B TYR* 3.4 32.2 - - + -
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Residues in contact with HIS 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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160A LYS* 3.5 31.1 + - + +
161A THR* 1.3 75.5 - - - +
163A LYS* 1.3 61.3 + - - +
101B SER* 3.9 17.3 - - - -
104B ALA* 3.5 31.7 - - + +
105B SER* 4.3 11.9 + - - -
108B ALA* 4.4 8.8 - - + +
116B VAL* 2.9 26.0 + - + +
118B GLU* 2.5 41.0 + - + -
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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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161A THR* 3.6 6.7 - - - +
162A HIS* 1.3 82.2 - - - +
164A GLU* 1.3 69.5 + - - +
165A THR* 4.2 17.9 - - + -
108B ALA* 2.9 38.4 + - + +
109B LYS 4.6 0.4 - - - -
110B TYR 2.8 21.4 + - - -
111B PRO* 4.1 6.7 + - - +
113B ILE 2.6 29.3 + - - +
114B VAL 3.8 8.1 - - - +
115B GLU* 3.3 4.9 - - - +
116B VAL* 3.0 35.6 + - + +
117B TYR* 4.4 0.9 - - - -
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Residues in contact with GLU 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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80A PRO* 5.3 5.0 - - - +
88A LEU* 3.8 2.4 - - - +
128A LYS* 4.5 1.1 + - - +
130A ARG* 2.6 33.5 + - - -
161A THR* 4.0 13.9 + - + +
163A LYS* 1.3 75.3 - - - +
165A THR* 1.3 61.8 + - - +
72B LYS* 5.8 4.6 + - - -
114B VAL 3.8 2.7 - - - -
115B GLU* 4.3 6.7 - - + -
117B TYR* 2.5 40.6 + - - +
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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