Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP04825
DateThu Jan 5 10:58:23 GMT 2012
Unique Job IDb5a473cc1e035341

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3b37A_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:aminopeptidase n;
PDBTitle: crystal structure of e. coli aminopeptidase n in complex with tyrosine
Confidence and coverage
Confidence:100.0% Coverage:100%
866 residues (100% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MTQQPQAKYRHDYRAPDYQITDIDLTFDLDAQKTVVTAVSQAVRHGASDAPLRLNGEDLK
Secondary structure 
SS confidence 
Disorder  ???????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  LVSVHINDEPWTAWKEEEGALVISNLPERFTLKIINEISPAANTALEGLYQSGDALCTQC
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  EAEGFRHITYYLDRPDVLARFTTKIIADKIKYPFLLSNGNRVAQGELENGRHWVQWQDPF
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  PKPCYLFALVAGDFDVLRDTFTTRSGREVALELYVDRGNLDRAPWAMTSLKNSMKWDEER
Secondary structure 
SS confidence 
Disorder 
?
?
???
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  FGLEYDLDIYMIVAVDFFNMGAMENKGLNIFNSKYVLARTDTATDKDYLDIERVIGHEYF
Secondary structure 
SS confidence 
Disorder 
?
?????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  HNWTGNRVTCRDWFQLSLKEGLTVFRDQEFSSDLGSRAVNRINNVRTMRGLQFAEDASPM
Secondary structure 
SS confidence 
Disorder 
??????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  AHPIRPDMVIEMNNFYTLTVYEKGAEVIRMIHTLLGEENFQKGMQLYFERHDGSAATCDD
Secondary structure 
SS confidence 
Disorder  ??
?????
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  FVQAMEDASNVDLSHFRRWYSQSGTPIVTVKDDYNPETEQYTLTISQRTPATPDQAEKQP
Secondary structure 
SS confidence 
Disorder 
?
????????
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  LHIPFAIELYDNEGKVIPLQKGGHPVNSVLNVTQAEQTFVFDNVYFQPVPALLCEFSAPV
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  KLEYKWSDQQLTFLMRHARNDFSRWDAAQSLLATYIKLNVARHQQGQPLSLPVHVADAFR
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  AVLLDEKIDPALAAEILTLPSVNEMAELFDIIDPIAIAEVREALTRTLATELADELLAIY
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  NANYQSEYRVEHEDIAKRTLRNACLRFLAFGETHLADVLVSKQFHEANNMTDALAALSAA
Secondary structure 
SS confidence 
Disorder 
?????
??
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  VAAQLPCRDALMQEYDDKWHQNGLVMDKWFILQATSPAANVLETVRGLLQHRSFTMSNPN
Secondary structure 
SS confidence 
Disorder 
??
???
??
?
??
Disorder confidence 
 
   .........790.........800.........810.........820.........830.........840
Sequence  RIRSLIGAFAGSNPAAFHAEDGSGYLFLVEMLTDLNSRNPQVASRLIEPLIRLKRYDAKR
Secondary structure 
SS confidence 
Disorder 
?
?
??
???
Disorder confidence 
 
   .........850.........860.........870
Sequence  QEKMRAALEQLKGLENLSGDLYEKITKALA
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 3b37 chain A

3D model

Region: 5 - 870
Aligned: 866
Modelled: 866
Confidence: 100.0%
Identity: 100%
PDB header:hydrolase
Chain: A: PDB Molecule:aminopeptidase n;
PDBTitle: crystal structure of e. coli aminopeptidase n in complex with tyrosine

Phyre2

PDB 3ebh chain A

3D model

Region: 5 - 869
Aligned: 855
Modelled: 865
Confidence: 100.0%
Identity: 35%
PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:m1 family aminopeptidase;
PDBTitle: structure of the m1 alanylaminopeptidase from malaria complexed with2 bestatin

Phyre2

PDB 2gtq chain A

3D model

Region: 6 - 869
Aligned: 859
Modelled: 862
Confidence: 100.0%
Identity: 47%
PDB header:hydrolase
Chain: A: PDB Molecule:aminopeptidase n;
PDBTitle: crystal structure of aminopeptidase n from human pathogen neisseria2 meningitidis

Phyre2

PDB 3se6 chain A

3D model

Region: 4 - 869
Aligned: 811
Modelled: 854
Confidence: 100.0%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 2;
PDBTitle: crystal structure of the human endoplasmic reticulum aminopeptidase 2

Phyre2

PDB 2xdt chain A

3D model

Region: 11 - 869
Aligned: 803
Modelled: 835
Confidence: 100.0%
Identity: 15%
PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of the soluble domain of human2 endoplasmic reticulum aminopeptidase 1 erap1

Phyre2

PDB 3mdj chain B

3D model

Region: 11 - 869
Aligned: 779
Modelled: 821
Confidence: 100.0%
Identity: 17%
PDB header:hydrolase/hydrolase inhibitor
Chain: B: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: er aminopeptidase, erap1, bound to the zinc aminopeptidase inhibitor,2 bestatin

Phyre2

PDB 1z5h chain B

3D model

Region: 18 - 770
Aligned: 694
Modelled: 731
Confidence: 100.0%
Identity: 19%
PDB header:hydrolase
Chain: B: PDB Molecule:tricorn protease interacting factor f3;
PDBTitle: crystal structures of the tricorn interacting factor f32 from thermoplasma acidophilum

Phyre2

PDB 3qnf chain A

3D model

Region: 11 - 740
Aligned: 660
Modelled: 704
Confidence: 100.0%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of the open state of human endoplasmic reticulum2 aminopeptidase 1 erap1

Phyre2

PDB 3b7u chain X

3D model

Region: 5 - 455
Aligned: 429
Modelled: 442
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase
Chain: X: PDB Molecule:leukotriene a-4 hydrolase;
PDBTitle: leukotriene a4 hydrolase complexed with kelatorphan

Phyre2

PDB 3cia chain A

3D model

Region: 15 - 484
Aligned: 433
Modelled: 470
Confidence: 100.0%
Identity: 21%
PDB header:hydrolase
Chain: A: PDB Molecule:cold-active aminopeptidase;
PDBTitle: crystal structure of cold-aminopeptidase from colwellia2 psychrerythraea

Phyre2

PDB 2xpy chain A

3D model

Region: 15 - 448
Aligned: 406
Modelled: 434
Confidence: 100.0%
Identity: 21%
PDB header:hydrolase
Chain: A: PDB Molecule:leukotriene a-4 hydrolase;
PDBTitle: structure of native leukotriene a4 hydrolase from saccharomyces2 cerevisiae

Phyre2

PDB 3b7s chain A domain 3

3D model

Region: 208 - 451
Aligned: 234
Modelled: 244
Confidence: 100.0%
Identity: 24%
Fold: Zincin-like
Superfamily: Metalloproteases ("zincins"), catalytic domain
Family: Leukotriene A4 hydrolase catalytic domain

Phyre2

PDB 3b7s chain A domain 2

3D model

Region: 5 - 192
Aligned: 182
Modelled: 186
Confidence: 100.0%
Identity: 23%
Fold: Leukotriene A4 hydrolase N-terminal domain
Superfamily: Leukotriene A4 hydrolase N-terminal domain
Family: Leukotriene A4 hydrolase N-terminal domain

Phyre2

PDB 3rjo chain A

3D model

Region: 444 - 869
Aligned: 373
Modelled: 404
Confidence: 99.9%
Identity: 12%
PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of erap1 peptide binding domain

Phyre2

PDB 2vqx chain A

3D model

Region: 223 - 337
Aligned: 106
Modelled: 115
Confidence: 95.2%
Identity: 19%
PDB header:hydrolase
Chain: A: PDB Molecule:metalloproteinase;
PDBTitle: precursor of protealysin, metalloproteinase from serratia2 proteamaculans.

Phyre2

PDB 1u4g chain A

3D model

Region: 223 - 429
Aligned: 198
Modelled: 199
Confidence: 95.1%
Identity: 11%
Fold: Zincin-like
Superfamily: Metalloproteases ("zincins"), catalytic domain
Family: Thermolysin-like

Phyre2

PDB 1npc chain A

3D model

Region: 221 - 330
Aligned: 102
Modelled: 110
Confidence: 93.7%
Identity: 17%
Fold: Zincin-like
Superfamily: Metalloproteases ("zincins"), catalytic domain
Family: Thermolysin-like

Phyre2

PDB 3cqb chain B

3D model

Region: 227 - 310
Aligned: 75
Modelled: 83
Confidence: 93.3%
Identity: 20%
PDB header:hydrolase
Chain: B: PDB Molecule:probable protease htpx homolog;
PDBTitle: crystal structure of heat shock protein htpx domain from vibrio2 parahaemolyticus rimd 2210633

Phyre2

PDB 3nqz chain B

3D model

Region: 223 - 429
Aligned: 187
Modelled: 199
Confidence: 91.8%
Identity: 15%
PDB header:hydrolase
Chain: B: PDB Molecule:secreted metalloprotease mcp02;
PDBTitle: crystal structure of the autoprocessed vibriolysin mcp-02 with e369a2 mutation

Phyre2

PDB 3nqx chain A

3D model

Region: 223 - 429
Aligned: 184
Modelled: 199
Confidence: 91.1%
Identity: 15%
PDB header:hydrolase
Chain: A: PDB Molecule:secreted metalloprotease mcp02;
PDBTitle: crystal structure of vibriolysin mcp-02 mature enzyme, a zinc2 metalloprotease from m4 family

Phyre2
1
c3b37A_
2
c3ebhA_
3
c2gtqA_
4
c3se6A_
5
c2xdtA_
6
c3mdjB_
7
c1z5hB_
8
c3qnfA_
9
c3b7uX_
10
c3ciaA_
11
c2xpyA_
12
d3b7sa3
13
d3b7sa2
14
c3rjoA_
15
c2vqxA_
16
d1u4ga_
17
d1npca_
18
c3cqbB_
19
c3nqzB_
20
c3nqxA_
21
22
23
24
25
26
27
28
29
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3b37A_
100.0 100 PDB header:hydrolase
Chain: A: PDB Molecule:aminopeptidase n;
PDBTitle: crystal structure of e. coli aminopeptidase n in complex with tyrosine
2c3ebhA_
100.0 35 PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:m1 family aminopeptidase;
PDBTitle: structure of the m1 alanylaminopeptidase from malaria complexed with2 bestatin
3c2gtqA_
100.0 47 PDB header:hydrolase
Chain: A: PDB Molecule:aminopeptidase n;
PDBTitle: crystal structure of aminopeptidase n from human pathogen neisseria2 meningitidis
4c3se6A_
100.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 2;
PDBTitle: crystal structure of the human endoplasmic reticulum aminopeptidase 2
5c2xdtA_
100.0 15 PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of the soluble domain of human2 endoplasmic reticulum aminopeptidase 1 erap1
6c3mdjB_
100.0 17 PDB header:hydrolase/hydrolase inhibitor
Chain: B: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: er aminopeptidase, erap1, bound to the zinc aminopeptidase inhibitor,2 bestatin
7c1z5hB_
100.0 19 PDB header:hydrolase
Chain: B: PDB Molecule:tricorn protease interacting factor f3;
PDBTitle: crystal structures of the tricorn interacting factor f32 from thermoplasma acidophilum
8c3qnfA_
100.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of the open state of human endoplasmic reticulum2 aminopeptidase 1 erap1
9c3b7uX_
100.0 24 PDB header:hydrolase
Chain: X: PDB Molecule:leukotriene a-4 hydrolase;
PDBTitle: leukotriene a4 hydrolase complexed with kelatorphan
10c3ciaA_
100.0 21 PDB header:hydrolase
Chain: A: PDB Molecule:cold-active aminopeptidase;
PDBTitle: crystal structure of cold-aminopeptidase from colwellia2 psychrerythraea
11c2xpyA_
100.0 21 PDB header:hydrolase
Chain: A: PDB Molecule:leukotriene a-4 hydrolase;
PDBTitle: structure of native leukotriene a4 hydrolase from saccharomyces2 cerevisiae
12d3b7sa3
100.0 24 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Leukotriene A4 hydrolase catalytic domain
13d3b7sa2
100.0 23 Fold:Leukotriene A4 hydrolase N-terminal domain
Superfamily:Leukotriene A4 hydrolase N-terminal domain
Family:Leukotriene A4 hydrolase N-terminal domain
14c3rjoA_
99.9 12 PDB header:hydrolase
Chain: A: PDB Molecule:endoplasmic reticulum aminopeptidase 1;
PDBTitle: crystal structure of erap1 peptide binding domain
15c2vqxA_
95.2 19 PDB header:hydrolase
Chain: A: PDB Molecule:metalloproteinase;
PDBTitle: precursor of protealysin, metalloproteinase from serratia2 proteamaculans.
16d1u4ga_
95.1 11 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Thermolysin-like
17d1npca_
93.7 17 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Thermolysin-like
18c3cqbB_
93.3 20 PDB header:hydrolase
Chain: B: PDB Molecule:probable protease htpx homolog;
PDBTitle: crystal structure of heat shock protein htpx domain from vibrio2 parahaemolyticus rimd 2210633
19c3nqzB_
91.8 15 PDB header:hydrolase
Chain: B: PDB Molecule:secreted metalloprotease mcp02;
PDBTitle: crystal structure of the autoprocessed vibriolysin mcp-02 with e369a2 mutation
20c3nqxA_
91.1 15 PDB header:hydrolase
Chain: A: PDB Molecule:secreted metalloprotease mcp02;
PDBTitle: crystal structure of vibriolysin mcp-02 mature enzyme, a zinc2 metalloprotease from m4 family
21c3k7nA_
not modelled 89.3 20 PDB header:hydrolase
Chain: A: PDB Molecule:k-like;
PDBTitle: structures of two elapid snake venom metalloproteases with2 distinct activities highlight the disulfide patterns in the3 d domain of adamalysin family proteins
22d1bqba_
not modelled 88.6 17 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Thermolysin-like
23c3k7lA_
not modelled 88.3 16 PDB header:hydrolase
Chain: A: PDB Molecule:atragin;
PDBTitle: structures of two elapid snake venom metalloproteases with2 distinct activities highlight the disulfide patterns in the3 d domain of adamalysin family proteins
24c2dw1B_
not modelled 87.5 19 PDB header:apoptosis, toxin
Chain: B: PDB Molecule:catrocollastatin;
PDBTitle: crystal structure of vap2 from crotalus atrox venom (form 2-2 crystal)
25c2erpA_
not modelled 86.1 17 PDB header:toxin
Chain: A: PDB Molecule:vascular apoptosis-inducing protein 1;
PDBTitle: crystal structure of vascular apoptosis-inducing protein-1(inhibitor-2 bound form)
26d1kjpa_
not modelled 86.0 14 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Thermolysin-like
27d1r55a_
not modelled 84.4 14 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
28c3c37B_
not modelled 83.9 15 PDB header:hydrolase
Chain: B: PDB Molecule:peptidase, m48 family;
PDBTitle: x-ray structure of the putative zn-dependent peptidase q74d82 at the2 resolution 1.7 a. northeast structural genomics consortium target3 gsr143a
29d4aiga_
not modelled 83.8 14 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
30c3g5cA_
not modelled 82.1 14 PDB header:membrane protein
Chain: A: PDB Molecule:adam 22;
PDBTitle: structural and biochemical studies on the ectodomain of human adam22
31c2e3xA_
not modelled 82.1 15 PDB header:hydrolase, blood clotting, toxin
Chain: A: PDB Molecule:coagulation factor x-activating enzyme heavy chain;
PDBTitle: crystal structure of russell's viper venom metalloproteinase
32d1nd1a_
not modelled 79.4 16 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
33c2rjpC_
not modelled 78.5 14 PDB header:hydrolase
Chain: C: PDB Molecule:adamts-4;
PDBTitle: crystal structure of adamts4 with inhibitor bound
34d1quaa_
not modelled 78.1 16 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
35d1kufa_
not modelled 77.7 13 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
36d1atla_
not modelled 77.5 13 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
37d1bswa_
not modelled 77.3 16 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
38c2rjqA_
not modelled 76.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:adamts-5;
PDBTitle: crystal structure of adamts5 with inhibitor bound
39c2y50A_
not modelled 75.5 15 PDB header:hydrolase
Chain: A: PDB Molecule:collagenase;
PDBTitle: crystal structure of collagenase g from clostridium2 histolyticum at 2.80 angstrom resolution
40d1wnia_
not modelled 73.4 11 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Reprolysin-like
41c2j83B_
not modelled 71.8 26 PDB header:hydrolase
Chain: B: PDB Molecule:ulilysin;
PDBTitle: ulilysin metalloprotease in complex with batimastat.
42c1yp1A_
not modelled 70.7 15 PDB header:hydrolase
Chain: A: PDB Molecule:fii;
PDBTitle: crystal structure of a non-hemorrhagic fibrin(ogen)olytic2 metalloproteinase from venom of agkistrodon acutus
43c3iukB_
not modelled 70.2 11 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of putative bacterial protein of unknown function2 (duf885, pf05960.1, ) from arthrobacter aurescens tc1, reveals fold3 similar to that of m32 carboxypeptidases
44c2v4bB_
not modelled 69.1 23 PDB header:hydrolase
Chain: B: PDB Molecule:adamts-1;
PDBTitle: crystal structure of human adamts-1 catalytic domain and2 cysteine-rich domain (apo-form)
45c3dtkA_
not modelled 68.7 15 PDB header:gene regulation
Chain: A: PDB Molecule:irre protein;
PDBTitle: crystal structure of the irre protein, a central regulator2 of dna damage repair in deinococcaceae
46c3o0yC_
not modelled 67.4 10 PDB header:lipid binding protein
Chain: C: PDB Molecule:lipoprotein;
PDBTitle: the crystal structure of the putative lipoprotein from colwellia2 psychrerythraea
47c2i47A_
not modelled 61.9 38 PDB header:hydrolase
Chain: A: PDB Molecule:adam 17;
PDBTitle: crystal structure of catalytic domain of tace with inhibitor
48c3lmcA_
not modelled 61.5 19 PDB header:hydrolase
Chain: A: PDB Molecule:peptidase, zinc-dependent;
PDBTitle: crystal structure of zinc-dependent peptidase from methanocorpusculum2 labreanum (strain z), northeast structural genomics consortium target3 mur16
49c3b8zB_
not modelled 61.1 23 PDB header:hydrolase
Chain: B: PDB Molecule:protein adamts-5;
PDBTitle: high resolution crystal structure of the catalytic domain2 of adamts-5 (aggrecanase-2)
50d2i47a1
not modelled 60.7 38 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:TNF-alpha converting enzyme, TACE, catalytic domain
51c2qn0A_
not modelled 59.2 21 PDB header:toxin
Chain: A: PDB Molecule:neurotoxin;
PDBTitle: structure of botulinum neurotoxin serotype c1 light chain2 protease
52c2xhqA_
not modelled 57.7 18 PDB header:hydrolase
Chain: A: PDB Molecule:archaemetzincin;
PDBTitle: crystal structure of archaemetzincin (amza) from archaeoglobus2 fulgidus at 1.45 a resolution
53c1z7hA_
not modelled 57.2 13 PDB header:hydrolase
Chain: A: PDB Molecule:tetanus toxin light chain;
PDBTitle: 2.3 angstrom crystal structure of tetanus neurotoxin light2 chain
54d1f83a_
not modelled 56.8 26 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Clostridium neurotoxins, catalytic domain
55d3btaa3
not modelled 56.4 18 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Clostridium neurotoxins, catalytic domain
56c3hjlA_
not modelled 54.0 15 PDB header:proton transport
Chain: A: PDB Molecule:flagellar motor switch protein flig;
PDBTitle: the structure of full-length flig from aquifex aeolicus
57d1k9xa_
not modelled 53.9 10 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Neurolysin-like
58c3ka1A_
not modelled 53.4 21 PDB header:chaperone
Chain: A: PDB Molecule:rbcx protein;
PDBTitle: crystal structure of rbcx from thermosynechococcus elongatus
59d1epwa3
not modelled 52.9 26 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Clostridium neurotoxins, catalytic domain
60d2ejqa1
not modelled 49.4 6 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:TTHA0227-like
61c2o0cB_
not modelled 49.4 18 PDB header:signaling protein
Chain: B: PDB Molecule:alr2278 protein;
PDBTitle: crystal structure of the h-nox domain from nostoc sp. pcc 71202 complexed to no
62c3zusD_
not modelled 49.0 18 PDB header:hydrolase/signaling protein
Chain: D: PDB Molecule:botulinum neurotoxin type a, synaptosomal-associated
PDBTitle: crystal structure of an engineered botulinum neurotoxin2 type a-snare23 derivative, lc-a-snap23-hn-a
63c2nyyA_
not modelled 48.9 18 PDB header:toxin/immune system
Chain: A: PDB Molecule:botulinum neurotoxin type a;
PDBTitle: crystal structure of botulinum neurotoxin type a complexed with2 monoclonal antibody cr1
64d3bona1
not modelled 47.4 18 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Clostridium neurotoxins, catalytic domain
65c3deeA_
not modelled 47.4 0 PDB header:transcription
Chain: A: PDB Molecule:putative regulatory protein;
PDBTitle: crystal structure of a putative regulatory protein involved in2 transcription (ngo1945) from neisseria gonorrhoeae fa 1090 at 2.25 a3 resolution
66d1j7na2
not modelled 47.4 17 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Anthrax toxin lethal factor, N- and C-terminal domains
67c3zuqA_
not modelled 46.9 26 PDB header:hydrolase
Chain: A: PDB Molecule:botulinum neurotoxin type b;
PDBTitle: crystal structure of an engineered botulinum neurotoxin2 type b-derivative, lc-b-gs-hn-b
68d2f22a1
not modelled 46.3 36 Fold:DinB/YfiT-like putative metalloenzymes
Superfamily:DinB/YfiT-like putative metalloenzymes
Family:DinB-like
69c1s0bA_
not modelled 45.0 26 PDB header:toxin, hydrolase
Chain: A: PDB Molecule:botulinum neurotoxin type b;
PDBTitle: crystal structure of botulinum neurotoxin type b at ph 4.0
70c3pl4A_
not modelled 44.7 12 PDB header:motor protein
Chain: A: PDB Molecule:flagellar motor switch protein;
PDBTitle: crystal structure of flig (residue 116-343) from h. pylori
71c3zurA_
not modelled 43.8 13 PDB header:hydrolase/signaling protein
Chain: A: PDB Molecule:botulinum neurotoxin type a, synaptosomal-associated
PDBTitle: crystal structure of an engineered botulinum neurotoxin2 type a-snare23 derivative, lc0-a-snap25-hn-a
72c3dl1A_
not modelled 39.0 12 PDB header:hydrolase
Chain: A: PDB Molecule:putative metal-dependent hydrolase;
PDBTitle: crystal structure of a putative metal-dependent hydrolase2 (yp_001336084.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 2.20 a resolution
73c2y0oA_
not modelled 38.9 14 PDB header:isomerase
Chain: A: PDB Molecule:probable d-lyxose ketol-isomerase;
PDBTitle: the structure of a d-lyxose isomerase from the sigmab2 regulon of bacillus subtilis
74c2l0rA_
not modelled 38.7 15 PDB header:hydrolase,toxin
Chain: A: PDB Molecule:lethal factor;
PDBTitle: conformational dynamics of the anthrax lethal factor catalytic center
75d1lmla_
not modelled 38.4 19 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Leishmanolysin
76c3sohB_
not modelled 36.4 26 PDB header:motor protein
Chain: B: PDB Molecule:flagellar motor switch protein flig;
PDBTitle: architecture of the flagellar rotor
77d1bqqm_
not modelled 35.5 45 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
78d2a1jb1
not modelled 34.8 20 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
79d1rm8a_
not modelled 32.3 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
80c2xs4A_
not modelled 32.1 36 PDB header:hydrolase
Chain: A: PDB Molecule:karilysin protease;
PDBTitle: structure of karilysin catalytic mmp domain in complex with2 magnesium
81d1hv5a_
not modelled 32.0 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
82c2x7mA_
not modelled 31.3 18 PDB header:hydrolase
Chain: A: PDB Molecule:archaemetzincin;
PDBTitle: crystal structure of archaemetzincin (amza) from methanopyrus2 kandleri at 1.5 a resolution
83d1cxva_
not modelled 30.2 19 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
84d1i76a_
not modelled 29.7 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
85d1hfca_
not modelled 28.9 45 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
86d1mmqa_
not modelled 28.5 27 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
87d1xuca1
not modelled 28.5 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
88c2k9mA_
not modelled 28.2 22 PDB header:transcription
Chain: A: PDB Molecule:rna polymerase sigma factor rpon;
PDBTitle: structure of the core binding domain of sigma54
89d1qiba_
not modelled 27.9 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
90d1y93a1
not modelled 27.9 27 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
91d1q3aa_
not modelled 27.5 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
92d1hy7a_
not modelled 27.5 36 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
93d2ovxa1
not modelled 27.4 27 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
94d1cgla_
not modelled 27.3 45 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
95d1lsha1
not modelled 25.9 13 Fold:alpha-alpha superhelix
Superfamily:Lipovitellin-phosvitin complex, superhelical domain
Family:Lipovitellin-phosvitin complex, superhelical domain
96d1s5qb_
not modelled 25.7 11 Fold:PAH2 domain
Superfamily:PAH2 domain
Family:PAH2 domain
97c2py8B_
not modelled 25.4 20 PDB header:chaperone
Chain: B: PDB Molecule:hypothetical protein rbcx;
PDBTitle: rbcx
98c2jsdA_
not modelled 25.0 36 PDB header:hydrolase
Chain: A: PDB Molecule:matrix metalloproteinase-20;
PDBTitle: solution structure of mmp20 complexed with nngh
99d1vh8a_
not modelled 24.8 10 Fold:Bacillus chorismate mutase-like
Superfamily:IpsF-like
Family:IpsF-like
100d1x2ia1
not modelled 24.8 15 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
101d1hova_
not modelled 24.8 23 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
102d1kfta_
not modelled 23.5 24 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Excinuclease UvrC C-terminal domain
103c1kftA_
not modelled 23.5 24 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
104d1st6a5
not modelled 23.3 14 Fold:Four-helical up-and-down bundle
Superfamily:alpha-catenin/vinculin-like
Family:alpha-catenin/vinculin
105d2py8a1
not modelled 23.0 22 Fold:RbcX-like
Superfamily:RbcX-like
Family:RbcX-like
106c2veeC_
not modelled 22.6 8 PDB header:transport protein
Chain: C: PDB Molecule:protoglobin;
PDBTitle: structure of protoglobin from methanosarcina acetivorans2 c2a
107d1eaka2
not modelled 22.5 27 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
108d2vv5a2
not modelled 21.9 11 Fold:Ferredoxin-like
Superfamily:Mechanosensitive channel protein MscS (YggB), C-terminal domain
Family:Mechanosensitive channel protein MscS (YggB), C-terminal domain
109c2z0uB_
not modelled 21.7 10 PDB header:lipid binding protein
Chain: B: PDB Molecule:ww domain-containing protein 1;
PDBTitle: crystal structure of c2 domain of kibra protein
110c3pkrA_
not modelled 21.7 12 PDB header:motor protein
Chain: A: PDB Molecule:flagellar motor switch protein;
PDBTitle: crystal structure of flig (residue 86-343) from h. pylori
111d1fbla2
not modelled 21.4 45 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Matrix metalloproteases, catalytic domain
112d1j9ia_
not modelled 20.6 22 Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:Terminase gpNU1 subunit domain
113d1c7ka_
not modelled 20.3 56 Fold:Zincin-like
Superfamily:Metalloproteases ("zincins"), catalytic domain
Family:Zinc protease
114c2cltB_
not modelled 20.1 36 PDB header:hydrolase
Chain: B: PDB Molecule:interstitial collagenase;
PDBTitle: crystal structure of the active form (full-length) of human2 fibroblast collagenase.

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