Contacts of the strand formed by residues 1210 - 1220 (chain A) in PDB entry 2H7C
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 GLY1210 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1132A ARG* 3.5 8.9 - - - -
1133A LEU 3.6 6.5 - - - -
1135A VAL* 3.8 13.2 - - - -
1164A VAL* 3.9 8.0 - - - +
1205A ILE* 3.0 16.6 + - - -
1206A ALA* 3.2 21.5 - - - -
1208A PHE 3.3 2.2 - - - -
1209A GLY* 1.3 79.6 - - - +
1211A ASN* 1.3 60.0 + - - -
1212A PRO* 3.2 4.9 - - - +
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Residues in contact with ASN1211 (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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1132A ARG* 3.3 39.0 + - + +
1133A LEU 2.8 14.4 + - - +
1135A VAL* 3.7 6.9 - - - +
1205A ILE* 4.1 1.3 - - - -
1210A GLY* 1.3 72.5 - - - -
1212A PRO* 1.3 69.0 - - - +
1213A GLY* 2.8 24.3 + - - -
1214A SER* 3.0 40.1 + - - +
1215A VAL* 4.1 0.2 - - - +
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Residues in contact with PRO1212 (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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1132A ARG* 4.3 9.2 - - - +
1202A GLN* 2.7 62.7 + - - +
1205A ILE* 3.7 17.4 - - + -
1206A ALA* 4.4 12.1 - - + -
1210A GLY 3.2 11.2 - - - +
1211A ASN* 1.3 85.0 - - - +
1213A GLY* 1.3 55.8 + - - +
1214A SER 3.2 1.1 + - - -
1215A VAL* 3.6 3.6 - - + +
1241A HIS* 3.2 9.7 - - - -
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Residues in contact with GLY1213 (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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1211A ASN* 2.8 16.3 + - - -
1212A PRO* 1.3 80.5 - - - +
1214A SER* 1.3 57.8 + - - +
1241A HIS* 3.4 25.2 + - - +
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Residues in contact with SER1214 (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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1134A PRO* 4.1 11.6 - - - +
1135A VAL 3.0 23.9 + - - +
1211A ASN* 3.0 28.8 + - - +
1212A PRO 3.2 0.4 - - - -
1213A GLY* 1.3 81.6 - - - +
1215A VAL* 1.3 59.7 + - - +
1216A THR* 4.0 1.5 + - - -
1241A HIS* 3.6 6.1 - - - -
1242A ARG* 4.1 7.7 + - - -
1504A ALA 3.5 19.8 + - - -
1505A ARG* 4.7 4.2 + - - -
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Residues in contact with VAL1215 (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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1135A VAL* 3.5 9.2 - - + +
1137A VAL* 3.8 28.3 - - + -
1198A LEU* 4.6 5.6 - - + -
1201A VAL* 4.1 17.9 - - + -
1202A GLN* 3.5 25.1 - - - +
1211A ASN 4.1 6.5 - - - +
1212A PRO* 3.6 8.3 - - + +
1214A SER* 1.3 75.0 - - - +
1216A THR* 1.3 66.5 + - - +
1239A LEU 3.9 18.8 - - - +
1240A PHE* 3.4 6.3 - - + -
1241A HIS* 2.6 43.2 + - - +
1242A ARG* 3.4 2.5 + - - -
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Residues in contact with THR1216 (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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1135A VAL 2.8 14.0 + - - -
1136A MET* 3.4 9.9 - - + -
1137A VAL* 2.8 27.5 + - - +
1214A SER 5.0 0.7 + - - -
1215A VAL* 1.3 73.9 - - - +
1217A ILE* 1.3 73.1 + - - +
1218A PHE* 4.4 1.2 - - + -
1242A ARG* 3.4 33.3 - - + +
1244A ILE* 4.3 22.0 - - + -
1503A PHE* 4.6 0.7 - - + -
1504A ALA* 3.3 37.5 + - + +
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Residues in contact with ILE1217 (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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1137A VAL* 3.4 11.4 - - + +
1139A ILE* 4.9 5.4 - - + -
1198A LEU* 3.6 33.9 - - + -
1215A VAL* 4.1 1.5 + - + -
1216A THR* 1.3 76.5 - - - +
1218A PHE* 1.3 61.3 + - - +
1227A VAL* 3.9 25.3 - - + +
1230A LEU* 4.0 29.8 - - + -
1240A PHE* 3.6 37.7 - - + -
1242A ARG 3.1 13.9 + - - +
1243A ALA* 3.3 5.3 - - + -
1244A ILE 2.8 24.3 + - - +
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Residues in contact with PHE1218 (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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1136A MET* 3.7 41.7 - - + -
1137A VAL 3.0 14.3 + - - +
1138A TRP* 3.2 59.1 - + + -
1139A ILE* 2.9 23.6 + - - +
1157A LEU* 4.2 11.2 - - + -
1165A VAL* 5.0 2.0 - - + -
1216A THR* 4.4 2.5 - - + -
1217A ILE* 1.3 77.2 - - - +
1219A GLY* 1.3 58.3 + - - +
1227A VAL* 3.8 5.6 - - - +
1244A ILE* 3.2 29.8 - - + -
1246A GLU* 3.8 10.1 - - - +
1475A VAL* 3.9 20.0 - - + -
1476A PHE* 4.1 9.4 - + - -
1500A TRP* 4.0 9.9 - + - -
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Residues in contact with GLY1219 (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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1138A TRP* 3.4 12.4 - - - -
1139A ILE 3.2 16.4 - - - -
1218A PHE* 1.3 79.2 - - - +
1220A GLU* 1.3 59.9 + - - -
1223A GLY 3.8 7.9 - - - -
1224A GLY* 3.4 12.0 - - - -
1227A VAL* 3.8 1.8 - - - +
1244A ILE 3.2 4.7 + - - +
1246A GLU* 2.9 27.5 + - - +
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Residues in contact with GLU1220 (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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1101A PHE* 3.9 15.3 - - - -
1138A TRP* 3.4 22.2 - - + -
1139A ILE 3.7 2.8 + - - -
1141A GLY* 3.3 15.6 + - - -
1152A TYR* 5.1 0.9 + - - -
1219A GLY* 1.3 73.8 - - - -
1221A SER* 1.3 75.9 + - - +
1223A GLY 2.8 15.9 + - - -
1224A GLY 3.4 2.6 - - - +
1246A GLU* 3.0 11.2 - - + +
1247A SER* 4.4 1.7 - - - -
1468A HIS* 3.0 32.7 + - - -
1469A GLY* 3.6 10.7 + - - -
1471A GLU* 3.1 27.4 - - - +
1472A LEU* 3.7 16.2 - - + +
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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