Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2212_(-)_2477198_2478334
DateMon Aug 5 13:25:34 BST 2019
Unique Job IDf5f61ea0f57ab5c9
SequenceVYDSLDFDAL ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:57.151 Y:77.910 Z:61.151
Model (left) based on template c1y10C_
Top template information
PDB header:lyase
Chain: C: PDB Molecule:hypothetical protein rv1264/mt1302;
PDBTitle: mycobacterial adenylyl cyclase rv1264, holoenzyme, inhibited state
Confidence and coverage
Confidence:100.0% Coverage: 93%
352 residues ( 93% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1y10C_
100.0 24
PDB header:lyase
Chain: C: PDB Molecule:hypothetical protein rv1264/mt1302;
PDBTitle: mycobacterial adenylyl cyclase rv1264, holoenzyme, inhibited state
2c6fhtB_
100.0 19
PDB header:lyase
Chain: B: PDB Molecule:bacteriophytochrome,adenylate cyclase;
PDBTitle: crystal structure of an artificial phytochrome regulated2 adenylate/guanylate cyclase in its dark adapted pr form
3c4yusA_
100.0 20
PDB header:lyase
Chain: A: PDB Molecule:family 3 adenylate cyclase;
PDBTitle: crystal structure of photoactivated adenylyl cyclase of a2 cyanobacteriaoscillatoria acuminata in hexagonal form
4c5nbyA_
100.0 21
PDB header:lyase
Chain: A: PDB Molecule:beta subunit of photoactivated adenylyl cyclase;
PDBTitle: structure of a bacterial light-regulated adenylyl cylcase
5d1fx2a_
100.0 32
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
6c6r4oA_
100.0 18
PDB header:membrane protein
Chain: A: PDB Molecule:adenylate cyclase 9;
PDBTitle: structure of a truncated adenylyl cyclase bound to mant-gtp, forskolin2 and an activated stimulatory galphas protein
7d1fx4a_
100.0 34
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
8c3mr7B_
100.0 24
PDB header:hydrolase
Chain: B: PDB Molecule:adenylate/guanylate cyclase/hydrolase, alpha/beta fold
PDBTitle: crystal structure of adenylate/guanylate cyclase/hydrolase from2 silicibacter pomeroyi
9c4wp3E_
100.0 30
PDB header:lyase
Chain: E: PDB Molecule:ma1120;
PDBTitle: crystal structure of adenylyl cyclase from mycobacterium avium ma11202 wild type
10c4cllA_
100.0 17
PDB header:lyase
Chain: A: PDB Molecule:adenylate cyclase type 10;
PDBTitle: crystal structure of human soluble adenylyl cyclase in complex with2 bicarbonate
11c5o5kC_
100.0 25
PDB header:membrane protein
Chain: C: PDB Molecule:adenylate cyclase;
PDBTitle: x-ray structure of a bacterial adenylyl cyclase soluble domain
12c6r4pA_
100.0 19
PDB header:membrane protein
Chain: A: PDB Molecule:adenylate cyclase 9;
PDBTitle: structure of a soluble domain of adenylyl cyclase bound to an2 activated stimulatory g protein
13d1wc1a_
100.0 30
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
14c1wc6B_
100.0 30
PDB header:lyase
Chain: B: PDB Molecule:adenylate cyclase;
PDBTitle: soluble adenylyl cyclase cyac from s. platensis in complex2 with rp-atpalphas in presence of bicarbonate
15c1ybuA_
100.0 28
PDB header:hydrolase
Chain: A: PDB Molecule:lipj;
PDBTitle: mycobacterium tuberculosis adenylyl cyclase rv1900c chd, in complex2 with a substrate analog.
16c3r5gB_
100.0 28
PDB header:lyase
Chain: B: PDB Molecule:cyab;
PDBTitle: crystal structure of the adenylyl cyclase cyab from p. aeruginosa
17c2w01C_
100.0 21
PDB header:lyase
Chain: C: PDB Molecule:adenylate cyclase;
PDBTitle: crystal structure of the guanylyl cyclase cya2
18c1cjkA_
100.0 25
PDB header:lyase/lyase/signaling protein
Chain: A: PDB Molecule:adenylate cyclase, type v;
PDBTitle: complex of gs-alpha with the catalytic domains of mammalian adenylyl2 cyclase: complex with adenosine 5'-(alpha thio)-triphosphate (rp),3 mg, and mn
19c3uvjC_
100.0 21
PDB header:lyase
Chain: C: PDB Molecule:guanylate cyclase soluble subunit alpha-3;
PDBTitle: crystal structure of the catalytic domain of the heterodimeric human2 soluble guanylate cyclase 1.
20d1azsa_
100.0 24
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
21c3et6A_
not modelled 100.0 23
PDB header:lyase
Chain: A: PDB Molecule:soluble guanylyl cyclase beta;
PDBTitle: the crystal structure of the catalytic domain of a eukaryotic2 guanylate cyclase
22d1azsb_
not modelled 100.0 21
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
23c2wz1B_
not modelled 100.0 24
PDB header:lyase
Chain: B: PDB Molecule:guanylate cyclase soluble subunit beta-1;
PDBTitle: structure of the catalytic domain of human soluble guanylate cyclase 12 beta 3.
24c1yk9A_
not modelled 100.0 27
PDB header:lyase
Chain: A: PDB Molecule:adenylate cyclase;
PDBTitle: crystal structure of a mutant form of the mycobacterial2 adenylyl cyclase rv1625c
25c6aoaA_
not modelled 100.0 23
PDB header:lyase
Chain: A: PDB Molecule:bacterio-rhodopsin/guanylyl cyclase 1 fusion protein;
PDBTitle: monomeric crystal structure of the e497/c566d double mutant of the2 guanylyl cyclase domain of the rhogc fusion protein from the aquatic3 fungus blastocladiella emersonii
26c2ev2B_
not modelled 99.9 21
PDB header:lyase
Chain: B: PDB Molecule:hypothetical protein rv1264/mt1302;
PDBTitle: structure of rv1264n, the regulatory domain of the mycobacterial2 adenylyl cylcase rv1264, at ph 8.5
27c2qv6D_
not modelled 96.3 18
PDB header:hydrolase
Chain: D: PDB Molecule:gtp cyclohydrolase iii;
PDBTitle: gtp cyclohydrolase iii from m. jannaschii (mj0145)2 complexed with gtp and metal ions
28c1w25B_
not modelled 96.0 12
PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp
29c5llxB_
not modelled 95.9 14
PDB header:transferase
Chain: B: PDB Molecule:diguanylate cyclase (ggdef) domain-containing protein;
PDBTitle: bacteriophytochrome activated diguanylyl cyclase from idiomarina2 species a28l with gtp bound
30c4zmuD_
not modelled 95.1 18
PDB header:lyase
Chain: D: PDB Molecule:diguanylate cyclase;
PDBTitle: dcsbis, a diguanylate cyclase from pseudomonas aeruginosa
31c3breA_
not modelled 94.3 13
PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
32c6d9mA_
not modelled 93.4 17
PDB header:hydrolase
Chain: A: PDB Molecule:fusion protein of endolysin,response receiver sensor
PDBTitle: t4-lysozyme fusion to geobacter ggdef
33c3ignA_
not modelled 93.2 9
PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase;
PDBTitle: crystal structure of the ggdef domain from marinobacter aquaeolei2 diguanylate cyclase complexed with c-di-gmp - northeast structural3 genomics consortium target mqr89a
34c3i5aA_
not modelled 92.6 18
PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
35c4h54B_
not modelled 91.5 15
PDB header:transferase
Chain: B: PDB Molecule:diguanylate cyclase ydeh;
PDBTitle: crystal structure of the diguanylate cyclase dgcz
36c3hvwA_
not modelled 90.9 13
PDB header:lyase
Chain: A: PDB Molecule:diguanylate-cyclase (dgc);
PDBTitle: crystal structure of the ggdef domain of the pa2567 protein from2 pseudomonas aeruginosa, northeast structural genomics consortium3 target par365c
37c3i5cA_
not modelled 90.6 9
PDB header:signaling protein
Chain: A: PDB Molecule:fusion of general control protein gcn4 and wspr response
PDBTitle: crystal structure of a fusion protein containing the leucine zipper of2 gcn4 and the ggdef domain of wspr from pseudomonas aeruginosa
38c3mtkA_
not modelled 89.7 11
PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase/phosphodiesterase;
PDBTitle: x-ray structure of diguanylate cyclase/phosphodiesterase from2 caldicellulosiruptor saccharolyticus, northeast structural genomics3 consortium target clr27c
39c4wxoA_
not modelled 89.4 15
PDB header:transferase
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: sadc (300-487) from pseudomonas aeruginosa pao1
40c5euhA_
not modelled 87.9 11
PDB header:membrane protein
Chain: A: PDB Molecule:putative ggdef domain membrane protein;
PDBTitle: crystal structure of the c-di-gmp-bound ggdef domain of p. fluorescens2 gcbc
41c3hvaA_
not modelled 87.4 15
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas aeruginosa
42c3ungC_
not modelled 82.5 17
PDB header:unknown function
Chain: C: PDB Molecule:cmr2dhd;
PDBTitle: structure of the cmr2 subunit of the crispr rna silencing complex
43c3ezuA_
not modelled 81.3 20
PDB header:signaling protein
Chain: A: PDB Molecule:ggdef domain protein;
PDBTitle: crystal structure of multidomain protein of unknown function with2 ggdef-domain (np_951600.1) from geobacter sulfurreducens at 1.95 a3 resolution
44c6eibC_
not modelled 77.3 10
PDB header:transferase
Chain: C: PDB Molecule:sensory box/ggdef family protein;
PDBTitle: structure of the active ggeef domain of a diguanylate cyclase from2 vibrio cholerae.
45c4iobA_
not modelled 77.0 14
PDB header:lyase
Chain: A: PDB Molecule:diguanylate cyclase tpbb;
PDBTitle: crystal structure of the ggdef domain of pa1120 (yfin or tpbb) from2 pseudomonas aeruginosa at 2.7 ang.
46c3i5bA_
not modelled 75.5 13
PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
47c4ymeA_
not modelled 74.6 18
PDB header:lyase
Chain: A: PDB Molecule:sensory box/ggdef family protein;
PDBTitle: crystal structure of a sensory box/ggdef family protein (cc_0091) from2 caulobacter crescentus cb15 at 1.40 a resolution (psi community3 target, shapiro)
48d1w25a3
not modelled 72.7 11
Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
49c4w8yA_
not modelled 71.9 18
PDB header:rna binding protein
Chain: A: PDB Molecule:crispr system cmr subunit cmr2;
PDBTitle: structure of full length cmr2 from pyrococcus furiosus (manganese2 bound form)
50c4zvhB_
not modelled 71.2 19
PDB header:signaling protein
Chain: B: PDB Molecule:diguanylate cyclase dosc;
PDBTitle: crystal structure of ggdef domain of the e. coli dosc - form iv
51c3qyyB_
not modelled 62.8 7
PDB header:signaling protein/inhibitor
Chain: B: PDB Molecule:response regulator;
PDBTitle: a novel interaction mode between a microbial ggdef domain and the bis-2 (3, 5 )-cyclic di-gmp
52c4urgB_
not modelled 60.9 16
PDB header:lyase
Chain: B: PDB Molecule:diguanylate cyclase;
PDBTitle: crystal structure of ggdef domain from t.maritima (active-like dimer)
53c4euvA_
not modelled 60.0 11
PDB header:signaling protein
Chain: A: PDB Molecule:peld;
PDBTitle: crystal structure of peld 158-ct from pseudomonas aeruginosa pao1, in2 complex with c-di-gmp, form 1
54c3iclA_
not modelled 56.2 13
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:eal/ggdef domain protein;
PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium target mcr174c
55d1v6ta_
not modelled 50.3 24
Fold:7-stranded beta/alpha barrel
Superfamily:Glycoside hydrolase/deacetylase
Family:LamB/YcsF-like
56c2x5eA_
not modelled 47.8 17
PDB header:unknown function
Chain: A: PDB Molecule:upf0271 protein pa4511;
PDBTitle: crystal structure of the hypothetical protein pa4511 from2 pseudomonas aeruginosa
57d2dfaa1
not modelled 47.4 27
Fold:7-stranded beta/alpha barrel
Superfamily:Glycoside hydrolase/deacetylase
Family:LamB/YcsF-like
58c4dmzB_
not modelled 47.1 7
PDB header:nucleotide-binding protein
Chain: B: PDB Molecule:putative uncharacterized protein peld;
PDBTitle: peld 156-455 from pseudomonas aeruginosa pa14, apo form
59c5xgdA_
not modelled 41.1 20
PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein pa0861;
PDBTitle: crystal structure of the pas-ggdef-eal domain of pa0861 from2 pseudomonas aeruginosa in complex with gtp
60c4zmmB_
not modelled 40.0 18
PDB header:transferase
Chain: B: PDB Molecule:diguanylate cyclase;
PDBTitle: ggdef domain of dcsbis complexed with c-di-gmp
61c5m3cB_
not modelled 35.4 16
PDB header:hydrolase
Chain: B: PDB Molecule:diguanylate cyclase;
PDBTitle: structure of the hybrid domain (ggdef-eal) of pa0575 from pseudomonas2 aeruginosa pao1 at 2.8 ang. with gtp and ca2+ bound to the active3 site of the ggdef domain
62c3pjwA_
not modelled 31.2 15
PDB header:lyase
Chain: A: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23
63c3tvkA_
not modelled 31.2 12
PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase dgcz;
PDBTitle: diguanylate cyclase domain of dgcz
64c3js3C_
not modelled 25.8 18
PDB header:lyase
Chain: C: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystal structure of type i 3-dehydroquinate dehydratase (arod) from2 clostridium difficile with covalent reaction intermediate
65c2yr1B_
not modelled 23.2 20
PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystal structure of 3-dehydroquinate dehydratase from geobacillus2 kaustophilus hta426
66d1gqna_
not modelled 21.7 22
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
67d1sfla_
not modelled 16.2 18
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
68c3l2iB_
not modelled 15.5 18
PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: 1.85 angstrom crystal structure of the 3-dehydroquinate dehydratase2 (arod) from salmonella typhimurium lt2.
69c2kjwA_
not modelled 11.5 21
PDB header:ribosomal protein
Chain: A: PDB Molecule:30s ribosomal protein s6;
PDBTitle: solution structure and backbone dynamics of the permutant p54-55
70d1veha_
not modelled 11.3 15
Fold:Alpha-lytic protease prodomain-like
Superfamily:Fe-S cluster assembly (FSCA) domain-like
Family:NifU C-terminal domain-like
71c4r24B_
not modelled 11.0 10
PDB header:transcrption/dna
Chain: B: PDB Molecule:hth-type transcriptional regulator tnra;
PDBTitle: complete dissection of b. subtilis nitrogen homeostatic circuitry
72c1ojhK_
not modelled 10.7 22
PDB header:protein binding
Chain: K: PDB Molecule:nbla;
PDBTitle: crystal structure of nbla from pcc 7120
73d1ojha_
not modelled 10.3 22
Fold:NblA-like
Superfamily:NblA-like
Family:NblA-like
74c4lrvL_
not modelled 9.3 55
PDB header:dna binding protein
Chain: L: PDB Molecule:dna sulfur modification protein dnde;
PDBTitle: crystal structure of dnde from escherichia coli b7a involved in dna2 phosphorothioation modification
75c2aq4A_
not modelled 8.7 17
PDB header:transferase
Chain: A: PDB Molecule:dna repair protein rev1;
PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp.
76c3dcaC_
not modelled 8.5 23
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:rpa0582;
PDBTitle: crystal structure of the rpa0582- protein of unknown2 function from rhodopseudomonas palustris- a structural3 genomics target
77c4r4eA_
not modelled 8.4 13
PDB header:transcription regulator/dna
Chain: A: PDB Molecule:hth-type transcriptional regulator glnr;
PDBTitle: structure of glnr-dna complex
78d2fiua1
not modelled 8.4 12
Fold:Ferredoxin-like
Superfamily:Dimeric alpha+beta barrel
Family:Atu0297-like
79d2nzca1
not modelled 8.1 12
Fold:Ferredoxin-like
Superfamily:ACT-like
Family:TM1266-like
80c5c8eC_
not modelled 8.0 11
PDB header:transcription regulator/dna
Chain: C: PDB Molecule:light-dependent transcriptional regulator carh;
PDBTitle: crystal structure of thermus thermophilus carh bound to2 adenosylcobalamin and a 26-bp dna segment
81c2xgvA_
not modelled 7.8 22
PDB header:viral protein
Chain: A: PDB Molecule:psiv capsid n-terminal domain;
PDBTitle: structure of the n-terminal domain of capsid protein from2 rabbit endogenous lentivirus (relik)
82c5nnyA_
not modelled 7.6 15
PDB header:hydrolase
Chain: A: PDB Molecule:wipb;
PDBTitle: crystal structure of the phosphatase domain from the legionella2 effector wipb
83d1m9dc_
not modelled 7.6 39
Fold:Retrovirus capsid protein, N-terminal core domain
Superfamily:Retrovirus capsid protein, N-terminal core domain
Family:Retrovirus capsid protein, N-terminal core domain
84d1m9fd_
not modelled 7.6 39
Fold:Retrovirus capsid protein, N-terminal core domain
Superfamily:Retrovirus capsid protein, N-terminal core domain
Family:Retrovirus capsid protein, N-terminal core domain
85d2eiaa2
not modelled 7.6 22
Fold:Retrovirus capsid protein, N-terminal core domain
Superfamily:Retrovirus capsid protein, N-terminal core domain
Family:Retrovirus capsid protein, N-terminal core domain
86d2pxrc1
not modelled 7.3 39
Fold:Retrovirus capsid protein, N-terminal core domain
Superfamily:Retrovirus capsid protein, N-terminal core domain
Family:Retrovirus capsid protein, N-terminal core domain
87c2wlvA_
not modelled 7.1 33
PDB header:viral protein
Chain: A: PDB Molecule:gag polyprotein;
PDBTitle: structure of the n-terminal capsid domain of hiv-2
88c3uitA_
not modelled 6.7 22
PDB header:cell adhesion
Chain: A: PDB Molecule:inad-like protein, maguk p55 subfamily member 5, protein
PDBTitle: overall structure of patj/pals1/mals complex
89c2y0fD_
not modelled 6.5 19
PDB header:oxidoreductase
Chain: D: PDB Molecule:4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase;
PDBTitle: structure of gcpe (ispg) from thermus thermophilus hb27
90d2hrva_
not modelled 6.4 44
Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral cysteine protease of trypsin fold
91c5buzC_
not modelled 6.3 23
PDB header:transport protein
Chain: C: PDB Molecule:snap receptor-like protein;
PDBTitle: crystal structure of a complex between the snare vam3 and the hops2 vps33-vps16 subcomplex from chaetomium thermophilum
92c5yqgE_
not modelled 6.2 42
PDB header:peptide binding protein
Chain: E: PDB Molecule:peptide from protein numb homolog;
PDBTitle: the structure of 14-3-3 and pnumb peptide
93c4a1aH_
not modelled 6.2 24
PDB header:ribosome
Chain: H: PDB Molecule:60s ribosomal protein l10;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 3.
94c2f7tA_
not modelled 6.2 12
PDB header:dna binding protein
Chain: A: PDB Molecule:mos1 transposase;
PDBTitle: crystal structure of the catalytic domain of mos1 mariner2 transposase
95c3iwfA_
not modelled 6.1 18
PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator rpir family;
PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
96d2fq4a1
not modelled 6.0 20
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
97c1z8rA_
not modelled 5.9 44
PDB header:hydrolase
Chain: A: PDB Molecule:coxsackievirus b4 polyprotein;
PDBTitle: 2a cysteine proteinase from human coxsackievirus b4 (strain2 jvb / benschoten / new york / 51)
98c5d1wD_
not modelled 5.9 22
PDB header:transcription
Chain: D: PDB Molecule:rv3249c transcriptional regulator;
PDBTitle: crystal structure of mycobacterium tuberculosis rv3249c2 transcriptional regulator.
99c4l3uA_
not modelled 5.9 18
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a duf3571 family protein (abaye3784) from2 acinetobacter baumannii aye at 1.95 a resolution

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