Contacts of the helix formed by residues 127 - 145 (chain A) in PDB entry 1MWH
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 ASP 127 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A ARG* 3.1 36.4 + - + +
123A ALA 4.0 0.2 + - - -
125A ASP 3.2 3.6 + - - +
126A GLY* 1.3 75.9 - - - +
128A SER* 1.3 59.9 + - - +
129A GLN* 2.9 16.8 + - - +
130A ALA* 2.8 33.3 + - + +
131A ARG* 2.9 31.1 + - - +
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Residues in contact with SER 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ILE* 3.3 28.6 - - - +
126A GLY 3.3 4.3 + - - -
127A ASP* 1.3 71.9 + - - +
129A GLN* 1.3 67.2 + - - +
131A ARG* 3.2 12.7 + - - +
132A ILE* 3.1 29.7 + - - +
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Residues in contact with GLN 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A HIS* 5.0 0.9 + - - -
70A ASP* 6.3 3.1 - - + -
122A ARG* 5.1 10.1 - - - +
127A ASP* 2.9 13.0 + - - +
128A SER* 1.3 76.5 + - - +
130A ALA* 1.3 61.9 + - - +
132A ILE* 3.5 10.9 + - - +
133A ALA* 3.2 21.8 + - + +
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Residues in contact with ALA 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ILE* 3.2 34.3 - - + +
122A ARG* 3.8 19.7 - - + +
123A ALA* 3.6 15.5 - - - +
127A ASP* 2.8 15.5 + - + +
129A GLN* 1.3 75.5 - - - +
131A ARG* 1.3 60.6 + - - +
133A ALA* 3.7 1.3 - - - +
134A THR* 2.8 34.7 + - - -
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Residues in contact with ARG 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ILE* 3.9 15.3 - - + +
79A ASN* 2.7 52.6 + - - +
81A VAL* 3.7 18.6 - - + +
123A ALA* 3.6 25.6 - - + +
126A GLY* 4.0 17.6 + - - -
127A ASP 2.9 27.9 + - - +
128A SER* 3.2 8.2 + - - +
130A ALA* 1.3 75.8 - - - +
132A ILE* 1.3 58.8 + - - +
134A THR* 3.4 2.1 + - - -
135A THR* 2.9 34.9 + - - -
669A PRO* 2.7 32.9 + - + +
670A GLY* 3.4 13.8 + - - -
671A ASN* 3.2 17.2 - - - +
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Residues in contact with ILE 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A HIS* 3.8 12.1 - - + +
70A ASP* 4.7 10.5 - - + +
73A TYR* 3.3 39.4 - - + +
74A TYR* 4.2 22.7 - - - +
75A ILE* 4.1 14.6 - - + -
81A VAL* 4.1 16.4 - - + -
128A SER* 3.1 19.5 + - - +
129A GLN* 3.7 9.9 - - - +
131A ARG* 1.3 76.9 - - - +
133A ALA* 1.3 62.5 + - - +
135A THR* 3.3 2.4 + - - -
136A TYR* 3.0 23.2 + - - +
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Residues in contact with ALA 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A HIS* 3.3 27.8 - - + +
102A LEU* 4.3 16.3 - - + +
115A LEU* 4.4 3.6 - - - +
119A ILE* 3.8 20.4 - - + -
129A GLN* 3.2 14.4 + - + +
130A ALA* 3.2 4.2 + - - +
132A ILE* 1.3 79.2 - - - +
134A THR* 1.3 58.5 + - - +
136A TYR* 3.9 1.0 - - - +
137A GLY* 2.9 26.2 + - - -
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Residues in contact with THR 134 (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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115A LEU* 3.7 8.0 - - + +
119A ILE* 3.7 5.4 + - - +
120A GLU* 3.5 28.1 - - + +
123A ALA* 3.4 13.1 - - + +
130A ALA 2.8 23.3 + - - -
131A ARG 3.8 3.1 - - - -
133A ALA* 1.3 71.5 - - - +
135A THR* 1.3 59.4 + - - +
137A GLY* 3.7 0.2 - - - -
138A ARG* 2.8 59.2 + - - +
669A PRO* 3.4 21.5 - - + -
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Residues in contact with THR 135 (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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73A TYR* 4.3 12.1 - - + -
81A VAL* 3.5 24.8 - - + +
131A ARG 2.9 24.0 + - - -
132A ILE 3.6 4.3 - - - -
134A THR* 1.3 77.8 - - - +
136A TYR* 1.3 58.8 + - - +
138A ARG* 3.6 1.4 - - - +
139A ILE* 2.8 29.7 + - + +
380A THR* 4.0 14.6 - - + -
667A PHE 3.3 10.7 - - - +
668A SER* 3.1 26.8 - - - +
669A PRO* 3.3 13.9 - - - +
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Residues in contact with TYR 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A HIS* 3.3 41.3 - + + -
73A TYR* 3.6 27.1 + - + -
94A VAL* 4.4 4.3 - - + -
95A PRO* 3.8 27.6 - - + -
97A CYS* 3.1 18.3 + - + -
98A SER 2.9 29.1 + - - -
99A ILE* 3.8 18.8 - - + +
102A LEU* 3.8 14.4 - - + -
132A ILE 3.0 15.9 + - - +
133A ALA 3.9 0.7 - - - +
135A THR* 1.3 76.9 - - - +
137A GLY* 1.3 60.3 + - - +
139A ILE* 3.4 2.7 - - - +
140A ALA* 2.9 30.8 + - + +
224A SER* 3.3 18.2 - - - -
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Residues in contact with GLY 137 (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 ILE* 4.6 9.9 - - - +
102A LEU* 5.4 0.7 - - - -
103A LEU* 6.5 0.2 - - - -
115A LEU* 4.4 18.4 - - - -
133A ALA 2.9 17.8 + - - -
134A THR 3.7 0.9 - - - -
136A TYR* 1.3 84.1 - - - +
138A ARG* 1.3 60.7 + - - +
140A ALA* 3.7 4.5 - - - +
141A GLU* 3.2 23.0 + - - +
216A TRP* 5.0 3.3 + - - -
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Residues in contact with ARG 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A LEU* 4.6 2.9 - - + +
120A GLU* 3.0 30.8 + - - +
124A LYS* 3.6 24.5 - - - +
134A THR* 2.8 33.4 + - + +
135A THR 3.6 2.7 - - - +
137A GLY* 1.3 70.5 - - - +
139A ILE* 1.3 60.4 - - - +
141A GLU* 3.5 16.2 + - - +
142A SER* 3.0 25.5 + - - -
666A SER 2.9 25.9 + - - -
667A PHE* 3.5 32.0 - - + +
669A PRO* 3.5 24.8 - - - +
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Residues in contact with ILE 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A TYR* 3.8 19.1 - - - +
94A VAL* 3.5 29.9 - - + +
135A THR 2.8 17.9 + - - +
136A TYR 3.4 11.0 - - - +
138A ARG* 1.3 70.9 - - - +
140A ALA* 1.3 69.7 + - - +
142A SER* 3.3 7.8 + - - -
143A GLN* 3.0 22.2 + - - +
378A VAL* 3.6 15.4 - - + +
379A ARG* 3.5 28.0 - - - +
380A THR* 3.6 28.0 - - + +
667A PHE* 4.3 13.2 - - + -
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Residues in contact with ALA 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A VAL* 4.1 13.9 - - + -
99A ILE* 4.6 5.8 - - + -
136A TYR* 2.9 23.1 + - + +
137A GLY 3.7 4.5 - - - +
138A ARG 3.3 0.2 - - - -
139A ILE* 1.3 77.7 - - - +
141A GLU* 1.3 63.2 + - - +
143A GLN* 3.2 8.9 + - - +
144A ALA* 3.0 20.6 + - - +
216A TRP* 3.9 25.3 - - + -
224A SER* 4.1 17.2 - - - +
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Residues in contact with GLU 141 (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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114A ARG* 2.6 41.8 + - - -
137A GLY 3.2 10.5 + - - +
138A ARG* 3.5 19.7 - - - +
140A ALA* 1.3 78.3 - - - +
142A SER* 1.3 67.3 + - - +
144A ALA* 2.9 16.2 + - - +
145A ARG* 2.9 22.3 + - - +
212A ALA 4.7 2.9 - - - -
213A GLY* 2.9 9.7 - - - -
214A VAL* 2.9 26.1 + - + +
216A TRP* 4.0 13.8 - - + +
667A PHE* 6.1 0.3 - - - -
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Residues in contact with SER 142 (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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138A ARG 3.0 15.5 + - - -
139A ILE* 3.6 11.4 - - - +
141A GLU* 1.3 77.1 - - - +
143A GLN* 1.3 62.7 + - - +
145A ARG* 3.2 16.7 + - - +
146A GLN* 3.1 23.9 + - - +
378A VAL* 4.2 15.9 - - - +
519A ASN* 5.2 0.5 + - - -
667A PHE* 3.5 30.7 - - - -
805A ARG 4.1 12.3 + - - -
806A ALA 4.9 0.9 + - - -
807A ASN 5.0 0.9 + - - -
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Residues in contact with GLN 143 (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 VAL* 4.0 36.3 + - + +
96A ASN* 5.9 0.8 + - - -
139A ILE 3.0 14.0 + - - +
140A ALA 3.4 8.3 + - - +
141A GLU 3.1 0.2 - - - -
142A SER* 1.3 77.5 - - - +
144A ALA* 1.3 60.9 + - - +
145A ARG 3.3 0.7 + - - -
146A GLN* 3.5 17.1 + - + +
224A SER* 3.0 29.5 + - - -
225A ALA* 4.6 1.4 - - - +
228A PRO* 3.3 29.4 - - + +
266A TYR* 4.9 3.2 - - - +
267A SER* 4.1 23.2 + - - -
375A ILE* 5.4 2.8 - - + +
376A PHE 5.9 1.8 - - - +
378A VAL* 4.2 18.1 + - + +
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Residues in contact with ALA 144 (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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140A ALA 3.0 11.3 + - - +
141A GLU* 2.9 9.9 + - - +
143A GLN* 1.3 76.9 - - - +
145A ARG* 1.3 60.5 + - - +
146A GLN 3.3 1.1 + - - -
147A ILE* 3.9 20.3 - - - +
207A TYR* 4.1 10.3 + - + -
209A TYR* 4.5 1.6 - - - -
214A VAL* 4.0 25.1 - - + -
216A TRP* 4.6 2.2 - - + -
227A PRO* 3.6 35.4 - - + +
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Residues in contact with ARG 145 (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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141A GLU* 2.9 25.5 + - + +
142A SER* 3.7 13.5 - - - +
143A GLN 3.2 1.0 - - - -
144A ALA* 1.3 76.6 - - - +
146A GLN* 1.3 53.8 + - - +
147A ILE* 2.7 21.3 + - - +
209A TYR* 3.9 15.3 + - + -
210A LEU 4.7 3.6 + - - +
211A SER 3.3 23.2 + - - -
212A ALA* 2.7 31.7 + - - +
213A GLY* 4.2 5.6 - - - -
214A VAL* 4.6 9.6 - - + -
805A ARG* 3.1 46.9 + - + +
807A ASN 3.4 20.0 + - - -
808A SER* 3.7 6.5 + - - +
809A SER 3.0 28.4 + - - -
810A ALA* 3.5 2.2 - - - +
811A GLU* 3.7 4.8 - - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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