Contacts of the strand formed by residues 1195 - 1215 (chain A) in PDB entry 2QOM
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 LYS1195 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1181A LYS* 3.6 1.9 - - - -
1182A GLN* 2.7 67.8 + - + +
1183A PHE 4.8 4.6 - - - -
1193A SER* 4.0 3.8 + - - +
1194A MET* 1.3 74.9 - - - +
1196A ASP* 1.3 68.7 + - - +
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Residues in contact with ASP1196 (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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1179A SER* 6.0 2.5 - - - -
1180A GLY 3.5 12.1 - - - +
1181A LYS* 3.7 21.7 + - + +
1182A GLN* 3.5 10.2 + - - -
1194A MET 3.8 2.0 + - - -
1195A LYS* 1.3 86.0 - - - +
1197A LYS* 1.3 60.8 + - - +
1198A ASP* 4.4 5.2 - - - -
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Residues in contact with LYS1197 (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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1180A GLY 2.7 31.6 + - - +
1181A LYS 4.1 2.7 - - - -
1182A GLN* 3.8 33.7 - - + +
1196A ASP* 1.3 75.8 - - - +
1198A ASP* 1.3 68.2 + - - +
1199A TYR* 3.6 6.1 - - - -
1236A ASN* 3.0 31.9 + - - +
1239A THR* 3.2 32.7 - - + +
1240A VAL* 3.9 19.3 - - + -
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Residues in contact with ASP1198 (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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1178A VAL 3.5 6.5 - - - +
1179A SER* 3.5 26.5 - - - +
1196A ASP* 5.9 4.9 - - - -
1197A LYS* 1.3 81.5 + - - +
1199A TYR* 1.3 63.5 + - - +
1200A ASN* 5.7 0.7 - - - -
1236A ASN* 3.6 12.7 - - - +
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Residues in contact with TYR1199 (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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1177A SER* 3.7 0.7 - - - -
1178A VAL* 2.8 73.2 + - + +
1180A GLY* 4.0 4.2 - - - -
1197A LYS 3.6 12.8 - - - -
1198A ASP* 1.3 74.7 - - - +
1200A ASN* 1.3 71.4 + - - +
1201A PRO* 3.5 16.0 - - + +
1234A LEU* 4.6 27.6 - - + -
1235A ALA 3.3 15.9 - - - +
1236A ASN* 3.6 12.6 - - - +
1237A GLY 4.9 0.2 - - - -
1240A VAL* 3.3 46.6 - - + +
1247A GLU* 3.6 20.1 - - + +
1248A LYS* 3.8 8.1 + - + -
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Residues in contact with ASN1200 (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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1175A TYR* 3.4 33.0 + - + +
1176A GLY 2.9 17.9 - - - +
1177A SER* 3.4 16.8 + - - -
1199A TYR* 1.3 81.4 - - - +
1201A PRO* 1.3 67.0 - - - +
1202A LEU* 3.5 2.4 + - - +
1233A LEU 3.6 0.5 - - - +
1234A LEU* 4.7 0.2 - - - -
1235A ALA* 3.2 38.2 + - + +
1236A ASN* 5.6 4.0 - - - +
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Residues in contact with PRO1201 (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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1150A TYR* 3.4 37.4 - - + +
1174A VAL 4.0 0.6 - - - +
1175A TYR* 3.4 5.2 - - - -
1176A GLY* 3.0 36.7 + - - +
1178A VAL* 4.0 8.3 - - + -
1199A TYR* 3.5 21.3 - - + +
1200A ASN* 1.3 84.5 - - - +
1202A LEU* 1.3 57.6 + - - +
1203A ILE* 4.1 11.4 - - + -
1233A LEU 3.4 7.0 - - - +
1234A LEU* 3.6 22.9 - - + -
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Residues in contact with LEU1202 (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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1173A LEU* 4.3 30.5 - - + -
1174A VAL 3.5 11.0 - - - +
1175A TYR* 3.6 31.0 - - + -
1200A ASN 4.7 1.6 - - - +
1201A PRO* 1.3 72.7 - - - +
1203A ILE* 1.3 61.9 + - - +
1204A GLY 4.2 0.4 + - - -
1231A PHE 4.0 0.2 - - - +
1232A ASP* 3.1 1.7 - - - -
1233A LEU* 2.7 58.8 + - + +
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Residues in contact with ILE1203 (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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1150A TYR* 5.7 5.4 - - + +
1172A GLU* 4.1 0.9 - - - +
1173A LEU* 3.5 5.1 - - - +
1174A VAL* 2.7 59.5 + - + +
1201A PRO* 4.6 13.2 - - + -
1202A LEU* 1.3 80.2 - - - +
1204A GLY* 1.3 58.5 + - - +
1205A ARG* 6.1 0.2 - - + -
1230A GLN* 3.9 26.5 - - + +
1231A PHE 3.3 13.7 - - - +
1232A ASP* 3.5 27.6 - - + +
1234A LEU* 5.4 2.2 - - + -
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Residues in contact with GLY1204 (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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1172A GLU 3.6 5.2 - - - -
1173A LEU* 3.9 14.6 - - - +
1202A LEU* 4.2 1.2 + - - +
1203A ILE* 1.3 74.6 - - - +
1205A ARG* 1.3 59.3 - - - -
1230A GLN* 3.3 7.1 - - - +
1231A PHE* 2.7 49.2 + - - +
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Residues in contact with ARG1205 (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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1024A ASN* 2.9 28.5 + - - -
1027A LYS* 6.3 0.7 - - - +
1154A GLU* 3.3 20.4 + - - +
1170A GLN* 3.3 29.6 + - - +
1171A ALA* 3.2 4.8 - - - +
1172A GLU* 2.7 80.2 + - + +
1204A GLY* 1.3 74.2 - - - +
1206A THR* 1.3 68.3 + - - +
1207A GLY* 4.6 10.9 - - - +
1209A ASP* 5.6 0.8 + - - -
1228A GLY* 5.9 0.4 - - - -
1229A TYR 3.5 11.0 - - - +
1230A GLN* 4.5 13.2 - - + +
1259A LEU* 3.8 26.6 - - + +
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Residues in contact with THR1206 (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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1170A GLN 3.3 11.1 + - - -
1171A ALA* 4.7 5.7 - - - +
1205A ARG* 1.3 79.7 - - - +
1207A GLY* 1.3 59.0 + - - +
1228A GLY* 3.2 1.4 - - - -
1229A TYR* 2.8 36.4 + - + +
1231A PHE* 4.5 3.1 - - + -
1159B TYR* 4.8 8.9 - - + -
1161B VAL* 3.5 43.3 - - + -
1167B ILE* 3.1 22.9 - - + +
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Residues in contact with GLY1207 (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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1169A PRO* 3.5 0.3 - - - +
1170A GLN* 2.7 43.0 + - - +
1205A ARG* 4.6 8.3 - - - +
1206A THR* 1.3 77.0 + - - +
1208A VAL* 1.3 63.6 + - - +
1209A ASP* 5.1 1.6 - - - -
1227A LEU 3.1 13.7 - - - -
1228A GLY* 3.5 4.3 - - - -
1167B ILE* 4.3 8.0 - - - +
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Residues in contact with VAL1208 (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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1167A ILE* 3.8 19.3 - - + -
1168A GLU 3.5 9.6 - - - +
1169A PRO* 3.7 18.4 - - + -
1170A GLN* 5.2 0.2 - - - -
1207A GLY* 1.3 79.9 - - - +
1209A ASP* 1.3 76.5 + - - +
1226A GLY* 3.1 2.3 - - - -
1227A LEU 2.8 32.1 + - - -
1167B ILE* 4.5 10.1 - - + -
1169B PRO* 4.2 19.3 - - + -
1208B VAL* 3.1 41.8 - - + +
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Residues in contact with ASP1209 (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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1026A ASN* 5.1 1.6 + - - -
1166A TRP* 3.8 7.7 - - + -
1167A ILE* 3.6 0.2 - - - -
1168A GLU* 2.8 34.7 + - - +
1170A GLN* 3.5 28.2 + - - +
1205A ARG* 5.6 0.7 + - - -
1207A GLY 5.1 0.3 - - - -
1208A VAL* 1.3 83.5 + - - +
1210A VAL* 1.3 64.9 + - - +
1224A ARG* 3.2 34.0 + - - +
1225A ALA 3.3 7.6 - - - +
1226A GLY* 3.6 13.3 - - - -
1227A LEU 4.9 0.7 - - - +
1261A SER* 4.8 6.7 + - - -
1277A GLU* 5.0 2.3 - - - +
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Residues in contact with VAL1210 (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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1166A TRP* 3.5 7.4 - - - +
1167A ILE* 3.6 29.4 - - + -
1209A ASP* 1.3 77.7 - - - +
1211A GLY* 1.3 59.0 + - - +
1224A ARG* 3.3 3.1 - - - +
1225A ALA* 2.8 42.3 + - + +
1206B THR* 3.7 21.1 - - - +
1207B GLY* 4.0 11.4 - - - -
1208B VAL* 4.2 9.4 - - + -
1227B LEU* 5.0 2.0 - - + +
1228B GLY* 4.2 18.4 - - - +
1229B TYR* 3.5 22.2 - - + -
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Residues in contact with GLY1211 (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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1165A ALA* 3.3 5.9 - - - +
1166A TRP* 3.1 59.1 + - - +
1210A VAL* 1.3 74.3 - - - +
1212A LYS* 1.3 60.9 + - - +
1223A ALA 3.2 12.3 - - - -
1224A ARG* 4.1 0.7 - - - -
1206B THR* 5.3 1.0 + - - -
1229B TYR* 4.7 5.4 - - - -
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Residues in contact with LYS1212 (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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1164A ASP* 3.2 27.8 - - + +
1165A ALA* 4.4 8.1 - - + -
1211A GLY* 1.3 74.4 - - - +
1213A SER* 1.3 68.8 + - - +
1214A PHE* 3.9 20.5 - - + -
1222A THR* 3.4 4.1 - - - +
1223A ALA* 2.9 31.1 + - + +
1229B TYR* 5.0 20.5 - - + -
1231B PHE* 4.9 12.6 - - + -
1256B SER* 5.2 8.7 - - - +
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Residues in contact with SER1213 (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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1160A HIS* 5.7 0.5 + - - -
1163A GLU 4.2 4.3 + - - -
1164A ASP* 3.0 46.0 + - - +
1166A TRP* 4.9 4.7 + - - -
1212A LYS* 1.3 74.4 - - - +
1214A PHE* 1.3 72.2 + - - +
1215A SER* 4.4 9.6 - - - -
1220A LYS* 4.5 10.8 - - - -
1221A VAL 3.4 5.8 - - - -
1222A THR* 3.5 21.1 + - - +
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Residues in contact with PHE1214 (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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1164A ASP* 5.4 2.7 - - - -
1212A LYS* 3.9 26.2 - - + -
1213A SER* 1.3 79.2 - - - +
1215A SER* 1.3 66.8 + - - +
1219A TRP* 3.2 21.2 - - + -
1220A LYS* 3.7 0.2 - - - +
1221A VAL* 2.8 46.7 + - + +
1223A ALA* 4.8 12.1 - - + -
1256B SER* 4.7 22.9 - - - -
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Residues in contact with SER1215 (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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1213A SER* 4.4 3.6 - - - -
1214A PHE* 1.3 82.2 + - - +
1216A GLY* 1.3 65.9 + - - +
1219A TRP* 3.2 23.2 - - - -
1220A LYS* 3.3 20.2 - - - +
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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