Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A8G0
DateThu Jan 5 11:07:45 GMT 2012
Unique Job ID38b01ba5f127d1ce

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2nrzB_
Top template information
PDB header:hydrolase
Chain: B: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation
Confidence and coverage
Confidence:100.0% Coverage: 34%
208 residues ( 34% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
349 residues ( 57%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSDQFDAKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALV
Secondary structure 
SS confidence 
Disorder  ??????
?
?
???
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  AQIQQIDVTVTHTETEALLLEHNYIKLYQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  AKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCLQYQIGRCLGPCVE
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  GLVSEEEYAQQVEYVRLFLSGKDDQVLTQLISRMETASQNLEFEEAARIRDQIQAVRRVT
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  EKQFVSNTGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELSEVVETFV
Secondary structure 
SS confidence 
Disorder 
??????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  GQFYLQGSQMRTLPGEILLDFNLSDKTLLADSLSELAGRKINVQTKPRGDRARYLKLART
Secondary structure 
SS confidence 
Disorder 
????
??
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  NAATALTSKLSQQSTVHQRLTALASVLKLPEVKRMECFDISHTMGEQTVASCVVFDANGP
Secondary structure 
SS confidence 
Disorder 
????
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  LRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIDDSKIPDVILIDGGKGQLAQAKNVFA
Secondary structure 
SS confidence 
Disorder  ???
???
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  ELDVSWDKNHPLLLGVAKGADRKAGLETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDH
Secondary structure 
SS confidence 
Disorder 
????
?
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  AIGGHRKKRAKVKNTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGL
Secondary structure 
SS confidence 
Disorder 
?????????????
???
Disorder confidence 
 
   .........610
Sequence  AEKIFWSLKH
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 2nrz chain B

3D model

Region: 377 - 608
Aligned: 208
Modelled: 232
Confidence: 100.0%
Identity: 38%
PDB header:hydrolase
Chain: B: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation

Phyre2

PDB 3c65 chain A

3D model

Region: 380 - 542
Aligned: 148
Modelled: 160
Confidence: 100.0%
Identity: 34%
PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of bacillus stearothermophilus uvrc 5'2 endonuclease domain

Phyre2

PDB 2nrr chain A

3D model

Region: 378 - 544
Aligned: 137
Modelled: 167
Confidence: 100.0%
Identity: 40%
PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal rnaseh endonuclase2 domain of uvrc

Phyre2

PDB 1yd2 chain A

3D model

Region: 1 - 95
Aligned: 90
Modelled: 95
Confidence: 99.9%
Identity: 34%
PDB header:dna binding protein
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the giy-yig n-terminal endonuclease domain of2 uvrc from thermotoga maritima: point mutant y19f bound to the3 catalytic divalent cation

Phyre2

PDB 2wsh chain C

3D model

Region: 14 - 94
Aligned: 81
Modelled: 81
Confidence: 99.9%
Identity: 21%
PDB header:hydrolase
Chain: C: PDB Molecule:endonuclease ii;
PDBTitle: structure of bacteriophage t4 endoii e118a mutant

Phyre2

PDB 1yd6 chain A

3D model

Region: 1 - 98
Aligned: 95
Modelled: 98
Confidence: 99.9%
Identity: 48%
PDB header:dna binding protein
Chain: A: PDB Molecule:uvrc;
PDBTitle: crystal structure of the giy-yig n-terminal endonuclease2 domain of uvrc from bacillus caldotenax

Phyre2

PDB 1kft chain A

3D model

Region: 555 - 610
Aligned: 56
Modelled: 56
Confidence: 99.4%
Identity: 100%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: Excinuclease UvrC C-terminal domain

Phyre2

PDB 1kft chain A

3D model

Region: 555 - 610
Aligned: 56
Modelled: 56
Confidence: 99.4%
Identity: 100%
PDB header:dna binding protein
Chain: A: PDB Molecule:excinuclease abc subunit c;
PDBTitle: solution structure of the c-terminal domain of uvrc from e-2 coli

Phyre2

PDB 1x2i chain A domain 1

3D model

Region: 551 - 610
Aligned: 60
Modelled: 60
Confidence: 99.2%
Identity: 27%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: Hef domain-like

Phyre2

PDB 2aq0 chain A domain 1

3D model

Region: 556 - 610
Aligned: 54
Modelled: 55
Confidence: 99.2%
Identity: 19%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: Hef domain-like

Phyre2

PDB 2bgw chain A domain 1

3D model

Region: 549 - 608
Aligned: 60
Modelled: 60
Confidence: 99.2%
Identity: 30%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: Hef domain-like

Phyre2

PDB 2a1j chain B domain 1

3D model

Region: 541 - 609
Aligned: 69
Modelled: 69
Confidence: 99.2%
Identity: 28%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: Hef domain-like

Phyre2

PDB 2i1q chain A domain 1

3D model

Region: 558 - 609
Aligned: 52
Modelled: 52
Confidence: 98.9%
Identity: 27%
Fold: SAM domain-like
Superfamily: Rad51 N-terminal domain-like
Family: DNA repair protein Rad51, N-terminal domain

Phyre2

PDB 1pzn chain A domain 1

3D model

Region: 558 - 609
Aligned: 52
Modelled: 52
Confidence: 98.8%
Identity: 35%
Fold: SAM domain-like
Superfamily: Rad51 N-terminal domain-like
Family: DNA repair protein Rad51, N-terminal domain

Phyre2

PDB 1mk0 chain A

3D model

Region: 17 - 102
Aligned: 86
Modelled: 86
Confidence: 98.7%
Identity: 20%
Fold: GIY-YIG endonuclease
Superfamily: GIY-YIG endonuclease
Family: GIY-YIG endonuclease

Phyre2

PDB 1dgs chain A domain 1

3D model

Region: 560 - 610
Aligned: 51
Modelled: 51
Confidence: 98.7%
Identity: 29%
Fold: SAM domain-like
Superfamily: RuvA domain 2-like
Family: NAD+-dependent DNA ligase, domain 3

Phyre2

PDB 2bhn chain D

3D model

Region: 551 - 610
Aligned: 60
Modelled: 60
Confidence: 98.6%
Identity: 30%
PDB header:hydrolase
Chain: D: PDB Molecule:xpf endonuclease;
PDBTitle: xpf from aeropyrum pernix

Phyre2

PDB 1szp chain A domain 1

3D model

Region: 557 - 609
Aligned: 53
Modelled: 53
Confidence: 98.5%
Identity: 15%
Fold: SAM domain-like
Superfamily: Rad51 N-terminal domain-like
Family: DNA repair protein Rad51, N-terminal domain

Phyre2

PDB 1e52 chain A

3D model

Region: 198 - 243
Aligned: 46
Modelled: 46
Confidence: 98.5%
Identity: 37%
Fold: Long alpha-hairpin
Superfamily: C-terminal UvrC-binding domain of UvrB
Family: C-terminal UvrC-binding domain of UvrB

Phyre2

PDB 2owo chain A

3D model

Region: 560 - 610
Aligned: 51
Modelled: 51
Confidence: 98.4%
Identity: 31%
PDB header:ligase/dna
Chain: A: PDB Molecule:dna ligase;
PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate

Phyre2

PDB 2yha chain A

3D model

Region: 270 - 477
Aligned: 207
Modelled: 207
Confidence: 55.4%
Identity: 12%
PDB header:rna binding protein
Chain: A: PDB Molecule:post-transcriptional gene silencing protein qde-2;
PDBTitle: crystal structure of the n. crassa qde-2 ago mid-piwi2 domains

Phyre2

PDB 2yhb chain A

3D model

Region: 270 - 477
Aligned: 207
Modelled: 207
Confidence: 55.4%
Identity: 12%
PDB header:rna binding protein
Chain: A: PDB Molecule:post-transcriptional gene silencing protein qde-2;
PDBTitle: crystal structure of the n. crassa qde-2 ago mid-piwi domains

Phyre2
1
c2nrzB_
2
c3c65A_
3
c2nrrA_
4
c1yd2A_
5
c2wshC_
6
c1yd6A_
7
d1kfta_
8
c1kftA_
9
d1x2ia1
10
d2aq0a1
11
d2bgwa1
12
d2a1jb1
13
d2i1qa1
14
d1pzna1
15
d1mk0a_
16
d1dgsa1
17
c2bhnD_
18
d1szpa1
19
d1e52a_
20
c2owoA_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
c2yhaA_
139
c2yhbA_
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2nrzB_
100.0 38 PDB header:hydrolase
Chain: B: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation
2c3c65A_
100.0 34 PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of bacillus stearothermophilus uvrc 5'2 endonuclease domain
3c2nrrA_
100.0 40 PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal rnaseh endonuclase2 domain of uvrc
4c1yd2A_
99.9 34 PDB header:dna binding protein
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the giy-yig n-terminal endonuclease domain of2 uvrc from thermotoga maritima: point mutant y19f bound to the3 catalytic divalent cation
5c2wshC_
99.9 21 PDB header:hydrolase
Chain: C: PDB Molecule:endonuclease ii;
PDBTitle: structure of bacteriophage t4 endoii e118a mutant
6c1yd6A_
99.9 48 PDB header:dna binding protein
Chain: A: PDB Molecule:uvrc;
PDBTitle: crystal structure of the giy-yig n-terminal endonuclease2 domain of uvrc from bacillus caldotenax
7d1kfta_
99.4 100 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Excinuclease UvrC C-terminal domain
8c1kftA_
99.4 100 PDB header:dna binding protein
Chain: A: PDB Molecule:excinuclease abc subunit c;
PDBTitle: solution structure of the c-terminal domain of uvrc from e-2 coli
9d1x2ia1
99.2 27 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
10d2aq0a1
99.2 19 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
11d2bgwa1
99.2 30 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
12d2a1jb1
99.2 28 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
13d2i1qa1
98.9 27 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:DNA repair protein Rad51, N-terminal domain
14d1pzna1
98.8 35 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:DNA repair protein Rad51, N-terminal domain
15d1mk0a_
98.7 20 Fold:GIY-YIG endonuclease
Superfamily:GIY-YIG endonuclease
Family:GIY-YIG endonuclease
16d1dgsa1
98.7 29 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:NAD+-dependent DNA ligase, domain 3
17c2bhnD_
98.6 30 PDB header:hydrolase
Chain: D: PDB Molecule:xpf endonuclease;
PDBTitle: xpf from aeropyrum pernix
18d1szpa1
98.5 15 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:DNA repair protein Rad51, N-terminal domain
19d1e52a_
98.5 37 Fold:Long alpha-hairpin
Superfamily:C-terminal UvrC-binding domain of UvrB
Family:C-terminal UvrC-binding domain of UvrB
20c2owoA_
98.4 31 PDB header:ligase/dna
Chain: A: PDB Molecule:dna ligase;
PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate
21c1dgsB_
not modelled 98.4 29 PDB header:ligase
Chain: B: PDB Molecule:dna ligase;
PDBTitle: crystal structure of nad+-dependent dna ligase from t.2 filiformis
22c1ixrA_
not modelled 98.4 26 PDB header:hydrolase
Chain: A: PDB Molecule:holliday junction dna helicase ruva;
PDBTitle: ruva-ruvb complex
23c1v9pB_
not modelled 98.4 29 PDB header:ligase
Chain: B: PDB Molecule:dna ligase;
PDBTitle: crystal structure of nad+-dependent dna ligase
24d1b22a_
not modelled 98.3 21 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:DNA repair protein Rad51, N-terminal domain
25c1b22A_
not modelled 98.3 21 PDB header:dna binding protein
Chain: A: PDB Molecule:dna repair protein rad51;
PDBTitle: rad51 (n-terminal domain)
26d1cuka2
not modelled 98.2 26 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:DNA helicase RuvA subunit, middle domain
27d1ixra1
not modelled 98.1 26 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:DNA helicase RuvA subunit, middle domain
28c3c1zA_
not modelled 98.1 26 PDB header:dna binding protein
Chain: A: PDB Molecule:dna integrity scanning protein disa;
PDBTitle: structure of the ligand-free form of a bacterial dna damage2 sensor protein
29d1szpb1
not modelled 97.8 18 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:DNA repair protein Rad51, N-terminal domain
30c1hjpA_
not modelled 97.8 31 PDB header:dna recombination
Chain: A: PDB Molecule:ruva;
PDBTitle: holliday junction binding protein ruva from e. coli
31c1d8lA_
not modelled 97.8 31 PDB header:gene regulation
Chain: A: PDB Molecule:protein (holliday junction dna helicase ruva);
PDBTitle: e. coli holliday junction binding protein ruva nh2 region2 lacking domain iii
32c2h5xA_
not modelled 97.7 30 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva;
PDBTitle: ruva from mycobacterium tuberculosis
33d1bvsa2
not modelled 97.7 28 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:DNA helicase RuvA subunit, middle domain
34c2w36B_
not modelled 97.5 24 PDB header:hydrolase
Chain: B: PDB Molecule:endonuclease v;
PDBTitle: structures of endonuclease v with dna reveal initiation of2 deaminated adenine repair
35c2va8A_
not modelled 97.4 21 PDB header:hydrolase
Chain: A: PDB Molecule:ski2-type helicase;
PDBTitle: dna repair helicase hel308
36c2p6uA_
not modelled 97.3 18 PDB header:dna binding protein
Chain: A: PDB Molecule:afuhel308 helicase;
PDBTitle: apo structure of the hel308 superfamily 2 helicase
37d2a1ja1
not modelled 97.3 19 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
38c3dlbA_
not modelled 97.2 18 PDB header:nucleic acid binding protein/dna
Chain: A: PDB Molecule:argonaute;
PDBTitle: crystal structure of the guide-strand-containing argonaute2 protein silencing complex
39d1qoja_
not modelled 97.1 44 Fold:Long alpha-hairpin
Superfamily:C-terminal UvrC-binding domain of UvrB
Family:C-terminal UvrC-binding domain of UvrB
40c1s5lu_
not modelled 97.0 20 PDB header:photosynthesis
Chain: U: PDB Molecule:photosystem ii 12 kda extrinsic protein;
PDBTitle: architecture of the photosynthetic oxygen evolving center
41d2axtu1
not modelled 96.9 20 Fold:SAM domain-like
Superfamily:PsbU/PolX domain-like
Family:PsbU-like
42c2d7dB_
not modelled 96.9 32 PDB header:hydrolase/dna
Chain: B: PDB Molecule:40-mer from uvrabc system protein b;
PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb
43d2p6ra2
not modelled 96.8 16 Fold:Sec63 N-terminal domain-like
Superfamily:Sec63 N-terminal domain-like
Family:Achaeal helicase C-terminal domain
44c3ga2A_
not modelled 96.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease v;
PDBTitle: crystal structure of the endonuclease_v (bsu36170) from2 bacillus subtilis, northeast structural genomics3 consortium target sr624
45c2csdB_
not modelled 96.5 29 PDB header:isomerase
Chain: B: PDB Molecule:topoisomerase v;
PDBTitle: crystal structure of topoisomerase v (61 kda fragment)
46c3gocB_
not modelled 96.5 17 PDB header:hydrolase
Chain: B: PDB Molecule:endonuclease v;
PDBTitle: crystal structure of the endonuclease v (sav1684) from streptomyces2 avermitilis. northeast structural genomics consortium target svr196
47c2izoA_
not modelled 96.5 16 PDB header:hydrolase
Chain: A: PDB Molecule:flap structure-specific endonuclease;
PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex
48c2ihmA_
not modelled 96.4 10 PDB header:transferase/dna
Chain: A: PDB Molecule:dna polymerase mu;
PDBTitle: polymerase mu in ternary complex with gapped 11mer dna2 duplex and bound incoming nucleotide
49d1xo1a1
not modelled 96.1 23 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
50c2ziuA_
not modelled 96.1 17 PDB header:hydrolase
Chain: A: PDB Molecule:mus81 protein;
PDBTitle: crystal structure of the mus81-eme1 complex
51c1ut8B_
not modelled 95.9 23 PDB header:hydrolase
Chain: B: PDB Molecule:exodeoxyribonuclease;
PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease
52d2duya1
not modelled 95.9 25 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:ComEA-like
53d1a77a1
not modelled 95.8 23 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
54c1kdhA_
not modelled 95.8 18 PDB header:transferase/dna
Chain: A: PDB Molecule:terminal deoxynucleotidyltransferase short
PDBTitle: binary complex of murine terminal deoxynucleotidyl2 transferase with a primer single stranded dna
55c2w9mB_
not modelled 95.4 33 PDB header:dna replication
Chain: B: PDB Molecule:polymerase x;
PDBTitle: structure of family x dna polymerase from deinococcus2 radiodurans
56d1ul1x1
not modelled 95.4 27 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
57d2edua1
not modelled 95.3 23 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:ComEA-like
58c3mr2A_
not modelled 95.3 10 PDB header:transferase/dna
Chain: A: PDB Molecule:dna polymerase eta;
PDBTitle: human dna polymerase eta in complex with normal dna and incoming2 nucleotide (nrm)
59d1rxwa1
not modelled 95.2 26 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
60c3nicA_
not modelled 95.1 40 PDB header:hydrolase/dna
Chain: A: PDB Molecule:eco29kir;
PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f
61d3bzka1
not modelled 95.1 16 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Tex HhH-containing domain-like
62c2zixA_
not modelled 95.1 21 PDB header:hydrolase
Chain: A: PDB Molecule:crossover junction endonuclease mus81;
PDBTitle: crystal structure of the mus81-eme1 complex
63d1mc8a1
not modelled 94.8 15 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
64d1b43a1
not modelled 94.8 15 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
65c8iczA_
not modelled 94.8 26 PDB header:transferase/dna
Chain: A: PDB Molecule:protein (dna polymerase beta (e.c.2.7.7.7));
PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7) complexed with2 seven base pairs of dna; soaked in the presence of of datp3 (1 millimolar), mncl2 (5 millimolar), and lithium sulfate4 (75 millimolar)
66c1ywlA_
not modelled 94.5 20 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical upf0213 protein ef2693;
PDBTitle: solution nmr structure of the protein ef2693 from e.2 faecalis: northeast structural genomics consortium target3 efr36
67c2aq4A_
not modelled 94.4 24 PDB header:transferase
Chain: A: PDB Molecule:dna repair protein rev1;
PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp.
68d2csba4
not modelled 94.1 33 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Topoisomerase V repeat domain
69c3q8lA_
not modelled 94.0 30 PDB header:hydrolase/dna
Chain: A: PDB Molecule:flap endonuclease 1;
PDBTitle: crystal structure of human flap endonuclease fen1 (wt) in complex with2 substrate 5'-flap dna, sm3+, and k+
70c1zg2A_
not modelled 93.8 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical upf0213 protein bh0048;
PDBTitle: solution nmr structure of the upf0213 protein bh0048 from2 bacillus halodurans. northeast structural genomics target3 bhr2.
71c1rxvA_
not modelled 93.8 24 PDB header:hydrolase/dna
Chain: A: PDB Molecule:flap structure-specific endonuclease;
PDBTitle: crystal structure of a. fulgidus fen-1 bound to dna
72c2bcuA_
not modelled 93.6 17 PDB header:transferase, lyase/dna
Chain: A: PDB Molecule:dna polymerase lambda;
PDBTitle: dna polymerase lambda in complex with a dna duplex2 containing an unpaired damp and a t:t mismatch
73c1a77A_
not modelled 93.5 24 PDB header:5'-3' exo/endo nuclease
Chain: A: PDB Molecule:flap endonuclease-1 protein;
PDBTitle: flap endonuclease-1 from methanococcus jannaschii
74c1b43A_
not modelled 93.4 15 PDB header:transferase
Chain: A: PDB Molecule:protein (fen-1);
PDBTitle: fen-1 from p. furiosus
75c1nomA_
not modelled 93.2 22 PDB header:nucleotidyltransferase
Chain: A: PDB Molecule:dna polymerase beta;
PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7), 31-kd domain; soaked in the2 presence of mncl2 (5 millimolar)
76d1cmwa1
not modelled 92.9 31 Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
77d2csba3
not modelled 92.8 27 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Topoisomerase V repeat domain
78c1ul1Y_
not modelled 92.6 30 PDB header:hydrolase/dna binding protein
Chain: Y: PDB Molecule:flap endonuclease-1;
PDBTitle: crystal structure of the human fen1-pcna complex
79d2q0zx1
not modelled 92.4 7 Fold:Sec63 N-terminal domain-like
Superfamily:Sec63 N-terminal domain-like
Family:Sec63 N-terminal domain
80d1t94a2
not modelled 92.3 18 Fold:DNA/RNA polymerases
Superfamily:DNA/RNA polymerases
Family:Lesion bypass DNA polymerase (Y-family), catalytic domain
81c3majA_
not modelled 92.0 22 PDB header:dna binding protein
Chain: A: PDB Molecule:dna processing chain a;
PDBTitle: crystal structure of putative dna processing protein dpra from2 rhodopseudomonas palustris cga009
82c1cmwA_
not modelled 91.8 25 PDB header:transferase
Chain: A: PDB Molecule:protein (dna polymerase i);
PDBTitle: crystal structure of taq dna-polymerase shows a new2 orientation for the structure-specific nuclease domain
83c2r8kB_
not modelled 91.6 13 PDB header:replication, transferase/dna
Chain: B: PDB Molecule:dna polymerase eta;
PDBTitle: structure of the eukaryotic dna polymerase eta in complex with 1,2-2 d(gpg)-cisplatin containing dna
84c3im2A_
not modelled 91.6 9 PDB header:hydrolase
Chain: A: PDB Molecule:pre-mrna-splicing helicase brr2;
PDBTitle: structure of the c-terminal sec63 unit of yeast brr2, p41212 form
85c2oceA_
not modelled 91.5 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein pa5201;
PDBTitle: crystal structure of tex family protein pa5201 from2 pseudomonas aeruginosa
86c3oryA_
not modelled 91.1 35 PDB header:hydrolase
Chain: A: PDB Molecule:flap endonuclease 1;
PDBTitle: crystal structure of flap endonuclease 1 from hyperthermophilic2 archaeon desulfurococcus amylolyticus
87c1t3nB_
not modelled 91.1 22 PDB header:replication/dna
Chain: B: PDB Molecule:polymerase (dna directed) iota;
PDBTitle: structure of the catalytic core of dna polymerase iota in2 complex with dna and dttp
88c3gqcB_
not modelled 90.4 12 PDB header:transferase/dna
Chain: B: PDB Molecule:dna repair protein rev1;
PDBTitle: structure of human rev1-dna-dntp ternary complex
89d2bcqa1
not modelled 90.4 23 Fold:SAM domain-like
Superfamily:DNA polymerase beta, N-terminal domain-like
Family:DNA polymerase beta, N-terminal domain-like
90c1jihA_
not modelled 90.1 13 PDB header:translation
Chain: A: PDB Molecule:dna polymerase eta;
PDBTitle: yeast dna polymerase eta
91c2fllA_
not modelled 89.3 24 PDB header:replication/dna
Chain: A: PDB Molecule:dna polymerase iota;
PDBTitle: ternary complex of human dna polymerase iota with dna and dttp
92d1u04a2
not modelled 88.6 15 Fold:Ribonuclease H-like motif
Superfamily:Ribonuclease H-like
Family:PIWI domain
93c2d7dA_
not modelled 88.5 37 PDB header:hydrolase/dna
Chain: A: PDB Molecule:uvrabc system protein b;
PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb
94c3psiA_
not modelled 87.2 14 PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor spt6;
PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(239-1451)
95d1u9la_
not modelled 86.9 16 Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:NusA extra C-terminal domains
96d1jmsa1
not modelled 86.3 7 Fold:SAM domain-like
Superfamily:DNA polymerase beta, N-terminal domain-like
Family:DNA polymerase beta, N-terminal domain-like
97d1jx4a2
not modelled 86.1 18 Fold:DNA/RNA polymerases
Superfamily:DNA/RNA polymerases
Family:Lesion bypass DNA polymerase (Y-family), catalytic domain
98d2fmpa1
not modelled 85.7 42 Fold:SAM domain-like
Superfamily:DNA polymerase beta, N-terminal domain-like
Family:DNA polymerase beta, N-terminal domain-like
99d1jiha2
not modelled 85.2 17 Fold:DNA/RNA polymerases
Superfamily:DNA/RNA polymerases
Family:Lesion bypass DNA polymerase (Y-family), catalytic domain
100d2uubb1
not modelled 85.1 19 Fold:Flavodoxin-like
Superfamily:Ribosomal protein S2
Family:Ribosomal protein S2
101d1w9ha1
not modelled 85.1 10 Fold:Ribonuclease H-like motif
Superfamily:Ribonuclease H-like
Family:PIWI domain
102d2i5ha1
not modelled 85.0 19 Fold:AF1531-like
Superfamily:AF1531-like
Family:AF1531-like
103c2i5hA_
not modelled 85.0 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein af1531;
PDBTitle: crystal structure of af1531 from archaeoglobus fulgidus,2 pfam duf655
104d1nzpa_
not modelled 84.8 38 Fold:SAM domain-like
Superfamily:DNA polymerase beta, N-terminal domain-like
Family:DNA polymerase beta, N-terminal domain-like
105c3psfA_
not modelled 84.8 15 PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor spt6;
PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(236-1259)
106d1kg2a_
not modelled 84.7 20 Fold:DNA-glycosylase
Superfamily:DNA-glycosylase
Family:Mismatch glycosylase
107d2csba1
not modelled 83.2 23 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Topoisomerase V repeat domain
108d1pu6a_
not modelled 83.1 18 Fold:DNA-glycosylase
Superfamily:DNA-glycosylase
Family:3-Methyladenine DNA glycosylase III (MagIII)
109d1lb2b_
not modelled 83.0 12 Fold:SAM domain-like
Superfamily:C-terminal domain of RNA polymerase alpha subunit
Family:C-terminal domain of RNA polymerase alpha subunit
110c2w42A_
not modelled 82.8 12 PDB header:protein/dna complex
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the structure of a piwi protein from archaeoglobus fulgidus2 complexed with a 16nt dna duplex.
111c2oh2B_
not modelled 82.6 14 PDB header:transferase/dna
Chain: B: PDB Molecule:dna polymerase kappa;
PDBTitle: ternary complex of human dna polymerase
112d1cooa_
not modelled 82.2 12 Fold:SAM domain-like
Superfamily:C-terminal domain of RNA polymerase alpha subunit
Family:C-terminal domain of RNA polymerase alpha subunit
113d1k1sa2
not modelled 80.7 20 Fold:DNA/RNA polymerases
Superfamily:DNA/RNA polymerases
Family:Lesion bypass DNA polymerase (Y-family), catalytic domain
114d1dk2a_
not modelled 79.6 38 Fold:SAM domain-like
Superfamily:DNA polymerase beta, N-terminal domain-like
Family:DNA polymerase beta, N-terminal domain-like
115c3qeaZ_
not modelled 78.8 14 PDB header:hydrolase/dna
Chain: Z: PDB Molecule:exonuclease 1;
PDBTitle: crystal structure of human exonuclease 1 exo1 (wt) in complex with dna2 (complex ii)
116d2gy9b1
not modelled 78.6 16 Fold:Flavodoxin-like
Superfamily:Ribosomal protein S2
Family:Ribosomal protein S2
117c2kp7A_
not modelled 76.5 21 PDB header:hydrolase
Chain: A: PDB Molecule:crossover junction endonuclease mus81;
PDBTitle: solution nmr structure of the mus81 n-terminal hhh.2 northeast structural genomics consortium target mmt1a
118d1keaa_
not modelled 76.3 20 Fold:DNA-glycosylase
Superfamily:DNA-glycosylase
Family:Mismatch glycosylase
119c3bbnB_
not modelled 75.3 17 PDB header:ribosome
Chain: B: PDB Molecule:ribosomal protein s2;
PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome.
120d1doqa_
not modelled 75.2 21 Fold:SAM domain-like
Superfamily:C-terminal domain of RNA polymerase alpha subunit
Family:C-terminal domain of RNA polymerase alpha subunit

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite


Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0