Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionA1L0T3
DateTue Jul 30 13:14:16 BST 2013
Unique Job ID91d36cd811f2fc8c
SequenceMGPSERPSIG ... Download FASTA

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:30.671 Y:38.197 Z:34.449
Model (left) based on template d1by2a_
Top template information
Fold:SRCR-like
Superfamily:SRCR-like
Family:Scavenger receptor cysteine-rich (SRCR) domain
Confidence and coverage
Confidence:100.0% Coverage: 18%
106 residues ( 18% 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.
256 residues ( 44%) 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
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MGPSERPSIGWTPKEAEMQIGPQPDGWSRGWKPGDRGAVPLPLSPALSFLLLFPLASALQ
Secondary structure 
SS confidence 
Disorder  ???????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  PTPLPFPELRLVGGPSRCRGRLEVMHSGSWGSVCDDDWDVVDANVVCRQLGCGLALPVPR
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  PLAFGQGRGPIFLDNVECRGQEASLSECGSRGWGVHNCFHYEDVAVLCDEFLHTQPPTRK
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  VLTSMAPATALQNGKGEGSVRLVGGASPCQGRVEILHGGVWGTVCDDDWGLQDAAVVCRQ
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  LGCGVALAATTNAFFGYGTGHILLDNVHCEGGEPRLAACQSLGWGVHNCGHHEDAGVLCA
Secondary structure 
SS confidence 
Disorder 
???
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  VLSPPTSTALPPSVTKEDWARHTGPAATGVGASPSRDTVWLTTAARASGKKSGRLRLVGG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  PSPCRGRVEVLYAGGWGTVCDDDWDFADARVACREAGCGPALGATGLGHFGYGRGPVLLD
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  NVGCTGTEARLSDCFHLGWGQHNCGHHEDAGALCAGPEELGLQVQQAGSETTRMPSPRPR
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  DGHLRLASGTHRCEGRVELFLGQRWGTVCDDAWDLRAAIVLCRQLGCGQALAAPGEAHFG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580......
Sequence  PGRGPILLDNVKCRGDESTLLLCSHIRWDVHNCDHSEDASVLCQPL
Secondary structure 
SS confidence 
Disorder 
????
????
???
Disorder confidence 
 

Confidence Key
High(9)                    Low (0)
?Disordered ( 5%)
Alpha helix ( 9%)
Beta strand ( 33%)

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 1by2 chain A

3D model

Region: 480 - 585
Aligned: 106
Modelled: 106
Confidence: 100.0%
Identity: 49%
Fold: SRCR-like
Superfamily: SRCR-like
Family: Scavenger receptor cysteine-rich (SRCR) domain

Phyre2

PDB 2oya chain A

3D model

Region: 479 - 584
Aligned: 101
Modelled: 106
Confidence: 100.0%
Identity: 46%
PDB header:ligand binding protein
Chain: A: PDB Molecule:macrophage receptor marco;
PDBTitle: crystal structure analysis of the dimeric form of the srcr domain of2 mouse marco

Phyre2

PDB 2jop chain A

3D model

Region: 477 - 585
Aligned: 99
Modelled: 109
Confidence: 100.0%
Identity: 28%
PDB header:immune system
Chain: A: PDB Molecule:t-cell surface glycoprotein cd5;
PDBTitle: solution structure of the n-terminal extracellular domain2 of the lymphocyte receptor cd5 (cd5 domain 1)

Phyre2

PDB 2ott chain Y

3D model

Region: 65 - 170
Aligned: 92
Modelled: 106
Confidence: 100.0%
Identity: 33%
PDB header:immune system
Chain: Y: PDB Molecule:t-cell surface glycoprotein cd5;
PDBTitle: crystal structure of cd5_diii

Phyre2

PDB 1z8g chain A domain 2

3D model

Region: 65 - 177
Aligned: 107
Modelled: 113
Confidence: 99.9%
Identity: 18%
Fold: SRCR-like
Superfamily: SRCR-like
Family: Hepsin, N-terminal domain

Phyre2

PDB 1z8g chain A

3D model

Region: 65 - 237
Aligned: 140
Modelled: 149
Confidence: 99.8%
Identity: 25%
PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:serine protease hepsin;
PDBTitle: crystal structure of the extracellular region of the transmembrane2 serine protease hepsin with covalently bound preferred substrate.

Phyre2

PDB 2xrc chain D

3D model

Region: 476 - 571
Aligned: 90
Modelled: 96
Confidence: 96.8%
Identity: 24%
PDB header:immune system
Chain: D: PDB Molecule:human complement factor i;
PDBTitle: human complement factor i

Phyre2

PDB 2dvk chain A

3D model

Region: 75 - 89
Aligned: 15
Modelled: 15
Confidence: 19.7%
Identity: 27%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0130 protein ape0816;
PDBTitle: crystal structure of hypothetical protein from aeropyrum pernix

Phyre2

PDB 1tlj chain A

3D model

Region: 75 - 88
Aligned: 14
Modelled: 14
Confidence: 17.0%
Identity: 29%
Fold: SSo0622-like
Superfamily: SSo0622-like
Family: SSo0622-like

Phyre2

PDB 1tlj chain A

3D model

Region: 75 - 88
Aligned: 14
Modelled: 14
Confidence: 17.0%
Identity: 29%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical upf0130 protein sso0622;
PDBTitle: crystal structure of conserved protein of unknown function2 sso0622 from sulfolobus solfataricus

Phyre2

PDB 2lw6 chain A

3D model

Region: 83 - 93
Aligned: 11
Modelled: 11
Confidence: 15.9%
Identity: 27%
PDB header:apoptosis
Chain: A: PDB Molecule:avrpiz-t protein;
PDBTitle: solution structure of an avirulence protein avrpiz-t from pathogen2 magnaportheoryzae

Phyre2

PDB 1pby chain A domain 5

3D model

Region: 68 - 90
Aligned: 23
Modelled: 23
Confidence: 15.3%
Identity: 22%
Fold: Streptavidin-like
Superfamily: Quinohemoprotein amine dehydrogenase A chain, domain 3
Family: Quinohemoprotein amine dehydrogenase A chain, domain 3

Phyre2

PDB 2akl chain A

3D model

Region: 67 - 83
Aligned: 17
Modelled: 17
Confidence: 13.2%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phna-like protein pa0128;
PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa

Phyre2

PDB 2akk chain A domain 1

3D model

Region: 67 - 83
Aligned: 17
Modelled: 17
Confidence: 13.1%
Identity: 24%
Fold: SH3-like barrel
Superfamily: Prokaryotic SH3-related domain
Family: PhnA-like

Phyre2

PDB 2akl chain A domain 1

3D model

Region: 67 - 83
Aligned: 17
Modelled: 17
Confidence: 12.7%
Identity: 24%
Fold: SH3-like barrel
Superfamily: Prokaryotic SH3-related domain
Family: PhnA-like

Phyre2

PDB 2qg3 chain B

3D model

Region: 75 - 102
Aligned: 28
Modelled: 28
Confidence: 9.1%
Identity: 25%
PDB header:unknown function
Chain: B: PDB Molecule:upf0130 protein af_2059;
PDBTitle: crystal structure of a tyw3 methyltransferase-like protein (af_2059)2 from archaeoglobus fulgidus dsm 4304 at 1.95 a resolution

Phyre2

PDB 1iic chain A

3D model

Region: 100 - 138
Aligned: 39
Modelled: 39
Confidence: 8.9%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:peptide n-myristoyltransferase;
PDBTitle: crystal structure of saccharomyces cerevisiae n-myristoyltransferase2 with bound myristoylcoa

Phyre2

PDB 2vxf chain A domain 1

3D model

Region: 126 - 144
Aligned: 19
Modelled: 19
Confidence: 8.8%
Identity: 21%
Fold: Sm-like fold
Superfamily: Sm-like ribonucleoproteins
Family: LSM14 N-terminal domain-like

Phyre2

PDB 2p6f chain A

3D model

Region: 100 - 138
Aligned: 39
Modelled: 39
Confidence: 8.7%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:glycylpeptide n-tetradecanoyltransferase;
PDBTitle: crystal structures of saccharomyces cerevisiae n-myristoyltransferase2 with bound myristoyl-coa and inhibitors

Phyre2

PDB 1dzl chain A

3D model

Region: 2 - 46
Aligned: 45
Modelled: 45
Confidence: 8.6%
Identity: 16%
PDB header:virus
Chain: A: PDB Molecule:late major capsid protein l1;
PDBTitle: l1 protein of human papillomavirus 16

Phyre2
1
d1by2a_
2
c2oyaA_
3
c2jopA_
4
c2ottY_
5
d1z8ga2
6
c1z8gA_
7
c2xrcD_
8
c2dvkA_
9
d1tlja_
10
c1tljA_
11
c2lw6A_
12
d1pbya5
13
c2aklA_
14
d2akka1
15
d2akla1
16
c2qg3B_
17
c1iicA_
18
d2vxfa1
19
c2p6fA_
20
c1dzlA_
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



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1by2a_
100.0 49 Fold:SRCR-like
Superfamily:SRCR-like
Family:Scavenger receptor cysteine-rich (SRCR) domain
2c2oyaA_
100.0 46 PDB header:ligand binding protein
Chain: A: PDB Molecule:macrophage receptor marco;
PDBTitle: crystal structure analysis of the dimeric form of the srcr domain of2 mouse marco
3c2jopA_
100.0 28 PDB header:immune system
Chain: A: PDB Molecule:t-cell surface glycoprotein cd5;
PDBTitle: solution structure of the n-terminal extracellular domain2 of the lymphocyte receptor cd5 (cd5 domain 1)
4c2ottY_
100.0 33 PDB header:immune system
Chain: Y: PDB Molecule:t-cell surface glycoprotein cd5;
PDBTitle: crystal structure of cd5_diii
5d1z8ga2
99.9 18 Fold:SRCR-like
Superfamily:SRCR-like
Family:Hepsin, N-terminal domain
6c1z8gA_
99.8 25 PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:serine protease hepsin;
PDBTitle: crystal structure of the extracellular region of the transmembrane2 serine protease hepsin with covalently bound preferred substrate.
7c2xrcD_
96.8 24 PDB header:immune system
Chain: D: PDB Molecule:human complement factor i;
PDBTitle: human complement factor i
8c2dvkA_
19.7 27 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0130 protein ape0816;
PDBTitle: crystal structure of hypothetical protein from aeropyrum pernix
9d1tlja_
17.0 29 Fold:SSo0622-like
Superfamily:SSo0622-like
Family:SSo0622-like
10c1tljA_
17.0 29 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical upf0130 protein sso0622;
PDBTitle: crystal structure of conserved protein of unknown function2 sso0622 from sulfolobus solfataricus
11c2lw6A_
15.9 27 PDB header:apoptosis
Chain: A: PDB Molecule:avrpiz-t protein;
PDBTitle: solution structure of an avirulence protein avrpiz-t from pathogen2 magnaportheoryzae
12d1pbya5
15.3 22 Fold:Streptavidin-like
Superfamily:Quinohemoprotein amine dehydrogenase A chain, domain 3
Family:Quinohemoprotein amine dehydrogenase A chain, domain 3
13c2aklA_
13.2 24 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phna-like protein pa0128;
PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa
14d2akka1
13.1 24 Fold:SH3-like barrel
Superfamily:Prokaryotic SH3-related domain
Family:PhnA-like
15d2akla1
12.7 24 Fold:SH3-like barrel
Superfamily:Prokaryotic SH3-related domain
Family:PhnA-like
16c2qg3B_
9.1 25 PDB header:unknown function
Chain: B: PDB Molecule:upf0130 protein af_2059;
PDBTitle: crystal structure of a tyw3 methyltransferase-like protein (af_2059)2 from archaeoglobus fulgidus dsm 4304 at 1.95 a resolution
17c1iicA_
8.9 23 PDB header:transferase
Chain: A: PDB Molecule:peptide n-myristoyltransferase;
PDBTitle: crystal structure of saccharomyces cerevisiae n-myristoyltransferase2 with bound myristoylcoa
18d2vxfa1
8.8 21 Fold:Sm-like fold
Superfamily:Sm-like ribonucleoproteins
Family:LSM14 N-terminal domain-like
19c2p6fA_
8.7 23 PDB header:transferase
Chain: A: PDB Molecule:glycylpeptide n-tetradecanoyltransferase;
PDBTitle: crystal structures of saccharomyces cerevisiae n-myristoyltransferase2 with bound myristoyl-coa and inhibitors
20c1dzlA_
8.6 16 PDB header:virus
Chain: A: PDB Molecule:late major capsid protein l1;
PDBTitle: l1 protein of human papillomavirus 16
21d1dzla_
not modelled 8.6 16 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Group I dsDNA viruses
Family:Papovaviridae-like VP
22d2ns0a1
not modelled 8.4 36 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:RHA1 ro06458-like
23c1jpeA_
not modelled 8.4 15 PDB header:electron transport
Chain: A: PDB Molecule:dsbd-alpha;
PDBTitle: crystal structure of dsbd-alpha; the n-terminal domain of2 dsbd
24c2vxeA_
not modelled 8.1 26 PDB header:transcription
Chain: A: PDB Molecule:cg10686-pa;
PDBTitle: solution structure of the lsm domain of drosophila2 melanogaster tral (trailer hitch)
25c2it3B_
not modelled 8.0 22 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:upf0130 protein ph1069;
PDBTitle: structure of ph1069 protein from pyrococcus horikoshii
26d1tn3a_
not modelled 8.0 25 Fold:C-type lectin-like
Superfamily:C-type lectin-like
Family:C-type lectin domain
27d1iica2
not modelled 7.8 23 Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-myristoyl transferase, NMT
28c1iylC_
not modelled 7.8 28 PDB header:transferase
Chain: C: PDB Molecule:myristoyl-coa:protein n-myristoyltransferase;
PDBTitle: crystal structure of candida albicans n-myristoyltransferase with non-2 peptidic inhibitor
29c1fwoA_
not modelled 7.7 19 PDB header:hydrolase
Chain: A: PDB Molecule:oryzain beta chain;
PDBTitle: the solution structure of a 35-residue fragment from the2 granulin/epithelin-like subdomain of rice oryzain beta3 (rob 382-416 (c398s,c399s,c407s,c413s))
30d1oz7a_
not modelled 7.7 25 Fold:C-type lectin-like
Superfamily:C-type lectin-like
Family:C-type lectin domain
31c4dx94_
not modelled 7.6 23 PDB header:protein binding
Chain: 4: PDB Molecule:integrin beta-1-binding protein 1;
PDBTitle: icap1 in complex with integrin beta 1 cytoplasmic tail
32c2r5kE_
not modelled 7.6 13 PDB header:viral protein
Chain: E: PDB Molecule:major capsid protein l1;
PDBTitle: pentamer structure of major capsid protein l1 of human2 papilloma virus type 11
33c2k0rA_
not modelled 7.4 33 PDB header:oxidoreductase
Chain: A: PDB Molecule:thiol:disulfide interchange protein dsbd;
PDBTitle: solution structure of the c103s mutant of the n-terminal2 domain of dsbd from neisseria meningitidis
34d1rxta2
not modelled 7.2 37 Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-myristoyl transferase, NMT
35d1l6pa_
not modelled 7.2 17 Fold:Immunoglobulin-like beta-sandwich
Superfamily:Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)
Family:Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)
36d1iyka2
not modelled 7.1 30 Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-myristoyl transferase, NMT
37c3iu2B_
not modelled 6.9 29 PDB header:transferase
Chain: B: PDB Molecule:glycylpeptide n-tetradecanoyltransferase 1;
PDBTitle: crystal structure of human type-i n-myristoyltransferase with bound2 myristoyl-coa and inhibitor ddd90096
38c1nj3A_
not modelled 6.6 26 PDB header:protein binding
Chain: A: PDB Molecule:npl4;
PDBTitle: structure and ubiquitin interactions of the conserved nzf2 domain of npl4
39c2a45J_
not modelled 6.4 32 PDB header:hydrolase/hydrolase inhibitor
Chain: J: PDB Molecule:fibrinogen alpha chain;
PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin
40c3a57A_
not modelled 6.3 32 PDB header:toxin
Chain: A: PDB Molecule:thermostable direct hemolysin 2;
PDBTitle: crystal structure of thermostable direct hemolysin
41d1wk1a_
not modelled 6.3 32 Fold:C-type lectin-like
Superfamily:C-type lectin-like
Family:C-type lectin domain
42c2vpnB_
not modelled 6.3 8 PDB header:transport
Chain: B: PDB Molecule:periplasmic substrate binding protein;
PDBTitle: high-resolution structure of the periplasmic ectoine-2 binding protein from teaabc trap-transporter of halomonas3 elongata
43c3ke2A_
not modelled 6.2 26 PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein yp_928783.1;
PDBTitle: crystal structure of a duf2131 family protein (sama_2911) from2 shewanella amazonensis sb2b at 2.50 a resolution
44c2jtkA_
not modelled 6.0 31 PDB header:signaling protein
Chain: A: PDB Molecule:dickkopf-related protein 2;
PDBTitle: a functional domain of a wnt signal protein
45d1jmxa5
not modelled 5.9 13 Fold:Streptavidin-like
Superfamily:Quinohemoprotein amine dehydrogenase A chain, domain 3
Family:Quinohemoprotein amine dehydrogenase A chain, domain 3
46c4g5eD_
not modelled 5.9 22 PDB header:oxidoreductase
Chain: D: PDB Molecule:2,4,6-trichlorophenol 4-monooxygenase;
PDBTitle: 2,4,6-trichlorophenol 4-monooxygenase
47c3fxbB_
not modelled 5.7 15 PDB header:transport protein
Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit;
PDBTitle: crystal structure of the ectoine-binding protein ueha
48d2pf5a1
not modelled 5.6 27 Fold:C-type lectin-like
Superfamily:C-type lectin-like
Family:Link domain
49d1k42a_
not modelled 5.5 15 Fold:Galactose-binding domain-like
Superfamily:Galactose-binding domain-like
Family:CBM4/9
50c3djmA_
not modelled 5.4 24 PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein duf427;
PDBTitle: crystal structure of a protein of unknown function from duf427 family2 (rsph17029_0682) from rhodobacter sphaeroides 2.4.1 at 2.51 a3 resolution
51c3iyjE_
not modelled 5.4 9 PDB header:virus
Chain: E: PDB Molecule:major capsid protein l1;
PDBTitle: bovine papillomavirus type 1 outer capsid
52c4ag4A_
not modelled 5.4 13 PDB header:immune system/transferase
Chain: A: PDB Molecule:epithelial discoidin domain-containing receptor 1;
PDBTitle: crystal structure of a ddr1-fab complex

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