Psyllid ID: psy14372

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210
MRTAEFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRTNKTKEEQNREENSYP
ccHHHHHHHHccccEEccccccEEEEEcccccccccccccccccccEEccccccHHHHHHHHccEEEccccccccccccccccEEcEEEEEEEccccccccEEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHccccccccccccEEEEEEEEcccHHHHHHHHHHHHHccHHHHHcccccccc
ccccEEEEEcEEEEcccccHHHHEEEEEcccccccccccccccccEEEEEccccEEEEEEccccEEEccHHHHHHHHHcccccEEEEEEEcccccccccEEEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccccHHHccccEEEEcccccccccccEEEEEEEccccccccccccccccc
MRTAEFLSRASYLLYSIPWGCGIVCYlaesgepvnipdaylvstpeiripwgcgivgyvaesgepvnipdaylvstpqiripwgcGIVCYlaesgepvnipdayLLINkfddlafsknDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLrsnnsslivpmakqsvTLDVLSYHASASLEDAQRLRRTnktkeeqnreensyp
MRTAEFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHasasledaqrlrrtnktkeeqnreensyp
MRTAEFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRTNKTKEEQNREENSYP
*****FLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHA*****************IV*****SVTLDVLSY******************************
****EFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRTNKT***QN*E***YP
********RASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRT***************
**TAEFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRTN**************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MRTAEFLSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYHASASLEDAQRLRRTNKTKEEQNREENSYP
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query210 2.2.26 [Sep-21-2011]
Q9VJ79 1451 Dual 3',5'-cyclic-AMP and yes N/A 0.533 0.077 0.462 8e-21
Q8CG03 865 cGMP-specific 3',5'-cycli yes N/A 0.557 0.135 0.337 2e-10
Q28156 865 cGMP-specific 3',5'-cycli no N/A 0.557 0.135 0.331 3e-10
O54735 833 cGMP-specific 3',5'-cycli yes N/A 0.557 0.140 0.331 5e-10
O76074 875 cGMP-specific 3',5'-cycli yes N/A 0.557 0.133 0.318 1e-09
O77746 865 cGMP-specific 3',5'-cycli yes N/A 0.557 0.135 0.324 1e-09
Q9HCR9 933 Dual 3',5'-cyclic-AMP and no N/A 0.447 0.100 0.349 5e-07
Q8VID6 935 Dual 3',5'-cyclic-AMP and no N/A 0.447 0.100 0.339 8e-07
P0C1Q2 933 Dual 3',5'-cyclic-AMP and no N/A 0.447 0.100 0.339 1e-06
Q1KKS3 903 Dual 3',5'-cyclic-AMP and N/A N/A 0.004 0.001 0.645 1e-06
>sp|Q9VJ79|PDE11_DROME Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 OS=Drosophila melanogaster GN=Pde11 PE=1 SV=4 Back     alignment and function desciption
 Score =  100 bits (249), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 61/132 (46%), Positives = 78/132 (59%), Gaps = 20/132 (15%)

Query: 46  EIRIPWGCGIVGYVAESGEPVNIPDAYL-----VSTPQIRIPWGCGIVCYLAESGEPVNI 100
           E R P   GI G+VA +GE VN+P+AY       S  +        I+C +A       I
Sbjct: 662 ESRFPINIGITGHVATTGETVNVPNAYEDDRFDASVDENSCFKHRSILC-MAIKNSLGQI 720

Query: 101 PDAYLLINKFDDLAFSKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYH 146
                LINKF++L F+KNDENFVEA              YEKA++AMAKQSVTL+VLSYH
Sbjct: 721 IGVIQLINKFNELDFTKNDENFVEAFAIFCGMGIHNTHMYEKAIVAMAKQSVTLEVLSYH 780

Query: 147 ASASLEDAQRLR 158
           ASA++++A RLR
Sbjct: 781 ASATMDEAHRLR 792
Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.
Drosophila melanogaster (taxid: 7227)
EC: 3EC: .EC: 1EC: .EC: 4EC: .EC: 3EC: 5
>sp|Q8CG03|PDE5A_MOUSE cGMP-specific 3',5'-cyclic phosphodiesterase OS=Mus musculus GN=Pde5a PE=1 SV=2 Back     alignment and function description
>sp|Q28156|PDE5A_BOVIN cGMP-specific 3',5'-cyclic phosphodiesterase OS=Bos taurus GN=PDE5A PE=1 SV=1 Back     alignment and function description
>sp|O54735|PDE5A_RAT cGMP-specific 3',5'-cyclic phosphodiesterase OS=Rattus norvegicus GN=Pde5a PE=2 SV=1 Back     alignment and function description
>sp|O76074|PDE5A_HUMAN cGMP-specific 3',5'-cyclic phosphodiesterase OS=Homo sapiens GN=PDE5A PE=1 SV=2 Back     alignment and function description
>sp|O77746|PDE5A_CANFA cGMP-specific 3',5'-cyclic phosphodiesterase OS=Canis familiaris GN=PDE5A PE=2 SV=1 Back     alignment and function description
>sp|Q9HCR9|PDE11_HUMAN Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Homo sapiens GN=PDE11A PE=1 SV=2 Back     alignment and function description
>sp|Q8VID6|PDE11_RAT Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Rattus norvegicus GN=Pde11a PE=1 SV=1 Back     alignment and function description
>sp|P0C1Q2|PDE11_MOUSE Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Mus musculus GN=Pde11a PE=1 SV=1 Back     alignment and function description
>sp|Q1KKS3|PDE11_TAKRU Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Takifugu rubripes GN=pde11a PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query210
322794650 625 hypothetical protein SINV_16524 [Solenop 0.571 0.192 0.535 2e-25
307191290 972 Dual 3',5'-cyclic-AMP and -GMP phosphodi 0.538 0.116 0.556 5e-25
328786557 961 PREDICTED: dual 3',5'-cyclic-AMP and -GM 0.557 0.121 0.537 9e-25
380017646 941 PREDICTED: dual 3',5'-cyclic-AMP and -GM 0.557 0.124 0.537 1e-24
383851028 1004 PREDICTED: dual 3',5'-cyclic-AMP and -GM 0.523 0.109 0.544 4e-24
307199016 886 Dual 3',5'-cyclic-AMP and -GMP phosphodi 0.538 0.127 0.541 5e-24
357620459 617 hypothetical protein KGM_06058 [Danaus p 0.585 0.199 0.5 6e-24
242020583 889 dual 3',5'-cyclic-AMP and -GMP phosphodi 0.566 0.133 0.517 4e-23
332027549 828 Dual 3',5'-cyclic-AMP and -GMP phosphodi 0.538 0.136 0.526 1e-22
350405537 978 PREDICTED: dual 3',5'-cyclic-AMP and -GM 0.409 0.087 0.492 2e-21
>gi|322794650|gb|EFZ17657.1| hypothetical protein SINV_16524 [Solenopsis invicta] Back     alignment and taxonomy information
 Score =  120 bits (302), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 75/140 (53%), Positives = 84/140 (60%), Gaps = 20/140 (14%)

Query: 39  AYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCG-----IVCYLAE 93
           ++  S  E R P   GI GYVA +GE VNIP+AY        +  G G     I+C +A 
Sbjct: 180 SFFCSPFESRFPINVGITGYVATTGETVNIPNAYEDPRFDPLVDDGTGFRHRTILC-MAI 238

Query: 94  SGEPVNIPDAYLLINKFDDLAFSKNDENFVEA--------------YEKAVIAMAKQSVT 139
                 I     LINKFDDL F+KNDENFVEA              YEKAVIAMAKQSVT
Sbjct: 239 KNSSGQIIGVIQLINKFDDLPFTKNDENFVEAFAIFCGMGIHNTHMYEKAVIAMAKQSVT 298

Query: 140 LDVLSYHASASLEDAQRLRS 159
           L+VLSYHASASLEDAQRLRS
Sbjct: 299 LEVLSYHASASLEDAQRLRS 318

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|307191290|gb|EFN74937.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 [Camponotus floridanus] Back     alignment and taxonomy information
>gi|328786557|ref|XP_003250812.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11-like [Apis mellifera] Back     alignment and taxonomy information
>gi|380017646|ref|XP_003692760.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11-like [Apis florea] Back     alignment and taxonomy information
>gi|383851028|ref|XP_003701055.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|307199016|gb|EFN79740.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|357620459|gb|EHJ72642.1| hypothetical protein KGM_06058 [Danaus plexippus] Back     alignment and taxonomy information
>gi|242020583|ref|XP_002430732.1| dual 3',5'-cyclic-AMP and -GMP phosphodiesterase, putative [Pediculus humanus corporis] gi|212515922|gb|EEB17994.1| dual 3',5'-cyclic-AMP and -GMP phosphodiesterase, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|332027549|gb|EGI67624.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|350405537|ref|XP_003487467.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11-like [Bombus impatiens] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query210
FB|FBgn0085370 1451 Pde11 "Phosphodiesterase 11" [ 0.252 0.036 0.611 8.1e-20
UNIPROTKB|F1NEV1 855 PDE11A "Uncharacterized protei 0.442 0.108 0.371 7.1e-12
ZFIN|ZDB-GENE-070912-207 878 pde11a "phosphodiesterase 11a" 0.152 0.036 0.656 5.1e-11
UNIPROTKB|E2R989 888 PDE11A "Uncharacterized protei 0.442 0.104 0.352 7.6e-10
UNIPROTKB|Q9HCR9 933 PDE11A "Dual 3',5'-cyclic-AMP 0.442 0.099 0.352 8.5e-10
UNIPROTKB|F7HZP8 933 PDE11A "Uncharacterized protei 0.442 0.099 0.352 8.5e-10
UNIPROTKB|F6UTJ5 933 PDE11A "Uncharacterized protei 0.442 0.099 0.352 8.5e-10
UNIPROTKB|F7B340 935 PDE11A "Uncharacterized protei 0.442 0.099 0.352 8.6e-10
UNIPROTKB|Q28156 865 PDE5A "cGMP-specific 3',5'-cyc 0.433 0.105 0.361 1e-09
UNIPROTKB|F6WM73 867 PDE11A "Uncharacterized protei 0.447 0.108 0.358 1.2e-09
FB|FBgn0085370 Pde11 "Phosphodiesterase 11" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 182 (69.1 bits), Expect = 8.1e-20, Sum P(2) = 8.1e-20
 Identities = 41/67 (61%), Positives = 51/67 (76%)

Query:   106 LINKFDDLAFSKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYHASASL 151
             LINKF++L F+KNDENFVEA              YEKA++AMAKQSVTL+VLSYHASA++
Sbjct:   726 LINKFNELDFTKNDENFVEAFAIFCGMGIHNTHMYEKAIVAMAKQSVTLEVLSYHASATM 785

Query:   152 EDAQRLR 158
             ++A RLR
Sbjct:   786 DEAHRLR 792
GO:0047555 "3',5'-cyclic-GMP phosphodiesterase activity" evidence=ISS;IDA
GO:0005575 "cellular_component" evidence=ND
GO:0004115 "3',5'-cyclic-AMP phosphodiesterase activity" evidence=ISS;IDA
GO:0007165 "signal transduction" evidence=IEA
GO:0046058 "cAMP metabolic process" evidence=IDA
GO:0046068 "cGMP metabolic process" evidence=IDA
GO:0046331 "lateral inhibition" evidence=IMP
UNIPROTKB|F1NEV1 PDE11A "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-070912-207 pde11a "phosphodiesterase 11a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2R989 PDE11A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q9HCR9 PDE11A "Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F7HZP8 PDE11A "Uncharacterized protein" [Callithrix jacchus (taxid:9483)] Back     alignment and assigned GO terms
UNIPROTKB|F6UTJ5 PDE11A "Uncharacterized protein" [Macaca mulatta (taxid:9544)] Back     alignment and assigned GO terms
UNIPROTKB|F7B340 PDE11A "Uncharacterized protein" [Equus caballus (taxid:9796)] Back     alignment and assigned GO terms
UNIPROTKB|Q28156 PDE5A "cGMP-specific 3',5'-cyclic phosphodiesterase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F6WM73 PDE11A "Uncharacterized protein" [Ornithorhynchus anatinus (taxid:9258)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query210
smart00065149 smart00065, GAF, Domain present in phytochromes an 3e-04
>gnl|CDD|214500 smart00065, GAF, Domain present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information 
 Score = 39.3 bits (92), Expect = 3e-04
 Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 8/90 (8%)

Query: 42  VSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGC-GIVCYLAESGEPVNI 100
           + T  IR P   G+ G VAE+G P+NIPD          +     G+  +L     P+  
Sbjct: 45  LPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADPLFAEDLLGRYQGVRSFL---AVPLVA 101

Query: 101 PD---AYL-LINKFDDLAFSKNDENFVEAY 126
                  L L NK     F++ DE  ++A 
Sbjct: 102 DGELVGVLALHNKKSPRPFTEEDEELLQAL 131

Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa. Length = 149

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 210
KOG3689|consensus 707 99.7
KOG3689|consensus 707 99.33
PRK11061 748 fused phosphoenolpyruvate-protein phosphotransfera 98.66
TIGR01817 534 nifA Nif-specific regulatory protein. This model r 98.5
COG1956163 GAF domain-containing protein [Signal transduction 98.12
PF01590154 GAF: GAF domain; InterPro: IPR003018 This domain i 97.9
PRK15429 686 formate hydrogenlyase transcriptional activator Fh 97.4
PRK15429 686 formate hydrogenlyase transcriptional activator Fh 97.12
smart00065149 GAF Domain present in phytochromes and cGMP-specif 96.81
PF13492129 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_ 96.28
COG3605 756 PtsP Signal transduction protein containing GAF an 96.24
PRK05022 509 anaerobic nitric oxide reductase transcription reg 95.42
PF13185148 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_ 95.3
PF14215163 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription fa 93.23
COG2203175 FhlA FOG: GAF domain [Signal transduction mechanis 91.67
>KOG3689|consensus Back     alignment and domain information 
Probab=99.70  E-value=9e-18  Score=162.22  Aligned_cols=137  Identities=31%  Similarity=0.337  Sum_probs=120.3

Q ss_pred             CCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc-------chhhhhccCCCCCC
Q psy14372         43 STPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP-------DAYLLINKFDDLAF  115 (210)
Q Consensus        43 ~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~-------~V~qliNK~~g~~F  115 (210)
                      ...+.+..++.||+|+||.||+++||+|++.    |++|+...|..|..+++++|+||+       ||.|++||.+|++|
T Consensus       236 ~~~~~~~~ld~~l~g~va~t~~~~ni~~~~~----~~~f~~q~d~~~~~~~~il~~pi~~~~~~~igv~~~~nk~~g~~f  311 (707)
T KOG3689|consen  236 AEIEFKKLLDYGLRGYVASTGEGLNISNAIA----DPRFDKQVDEDGTGIRPILCIPIKNKKGEVIGVQQLVNKEDGNPF  311 (707)
T ss_pred             hhHHHHhhhhhhhhheeecccCcCCCCCccc----cccccccccccccccceeEEEecccccCceecceeeeccccCCcc
Confidence            3466777899999999999999999999999    999999886466666679999997       48999999999999


Q ss_pred             ChhhHHHHHH--------------HHHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHccCCCcCCCccccceeEeeEEEe
Q psy14372        116 SKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYH  181 (210)
Q Consensus       116 t~~De~~le~--------------ye~~~~~~ak~~v~levLsyH~~~s~~e~~~l~~~~~~~~ip~~~~~~~l~~~~fh  181 (210)
                      ++.||.++++              |+.+.+.+.|+.|++|+++||+++..+|++.+         | + +...|.+|+| 
T Consensus       312 ~~~de~~~~~~~~~~gl~i~~~~~y~~~~~s~~r~~v~~e~l~~h~~~~~~e~~~~---------~-~-~~~~l~d~~f-  379 (707)
T KOG3689|consen  312 SRNDEDLFEAFTIFCGLSIHNTHMYSKINKSEPRQGVALEFLSYHAKALEEEVQWG---------P-A-TILKLLDFFF-  379 (707)
T ss_pred             ccchHHHHHHHHHHHhhhhhhhhhHHHHhhhccccchhHHHHHHHHhhhHHhhccc---------c-h-hhhcccccee-
Confidence            9999999998              56667778899999999999999999998854         5 4 4788999999 


Q ss_pred             cCCChhHHHHHHHh
Q psy14372        182 ASASLEDAQRLRRT  195 (210)
Q Consensus       182 ~d~~~~e~~~l~~~  195 (210)
                      +|..+++.+.++++
T Consensus       380 ~d~~~~~~~l~~~~  393 (707)
T KOG3689|consen  380 SDRLLSENELTKCT  393 (707)
T ss_pred             ccccCCCchHHHHH
Confidence            89999999988864

>KOG3689|consensus Back     alignment and domain information
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional Back     alignment and domain information
>TIGR01817 nifA Nif-specific regulatory protein Back     alignment and domain information
>COG1956 GAF domain-containing protein [Signal transduction mechanisms] Back     alignment and domain information
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional Back     alignment and domain information
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional Back     alignment and domain information
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A Back     alignment and domain information
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms] Back     alignment and domain information
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional Back     alignment and domain information
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A Back     alignment and domain information
>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal Back     alignment and domain information
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query210
3bjc_A 878 Crystal Structure Of The Pde5a Catalytic Domain In 1e-10
3ibj_A 691 X-Ray Structure Of Pde2a Length = 691 3e-05
1mc0_A368 Regulatory Segment Of Mouse 3',5'-Cyclic Nucleotide 6e-05
3lfv_A 431 Crystal Structure Of Unliganded Pde5a Gaf Domain Le 1e-04
3mf0_A 432 Crystal Structure Of Pde5a Gaf Domain (89-518) Leng 2e-04
2zmf_A189 Crystal Structure Of The C-Terminal Gaf Domain Of H 3e-04
2k31_A176 Solution Structure Of Cgmp-Binding Gaf Domain Of Ph 3e-04
1ykd_A398 Crystal Structure Of The Tandem Gaf Domains From A 6e-04
>pdb|3BJC|A Chain A, Crystal Structure Of The Pde5a Catalytic Domain In Complex With A Novel Inhibitor Length = 878 Back     alignment and structure 
Iteration: 1

 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 76/154 (49%), Gaps = 37/154 (24%)
Query: 58  YVAESGEPVNIPDAYLVSTPQIRIPWGC------------GIVCYLAESGEPVNIPDAYL 105
           YV  + EP+NIPD     +   R PW               ++C   ++G+   +     
Sbjct: 417 YVKNTMEPLNIPDV----SKDKRFPWTTENTGNVNQQCIRSLLCTPIKNGKKNKVIGVCQ 472
Query: 106 LINKFDDLA-----FSKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYH 146
           L+NK ++       F++NDE F+EA              YE    AMAKQ VTL+VLSYH
Sbjct: 473 LVNKMEENTGKVKPFNRNDEQFLEAFVIFCGLGIQNTQMYEAVERAMAKQMVTLEVLSYH 532
Query: 147 ASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSY 180
           ASA+ E+ + L+S  ++ +VP A Q++ +   S+
Sbjct: 533 ASAAEEETRELQS-LAAAVVPSA-QTLKITDFSF 564
>pdb|3IBJ|A Chain A, X-Ray Structure Of Pde2a Length = 691 Back     alignment and structure
>pdb|1MC0|A Chain A, Regulatory Segment Of Mouse 3',5'-Cyclic Nucleotide Phosphodiesterase 2a, Containing The Gaf A And Gaf B Domains Length = 368 Back     alignment and structure
>pdb|3LFV|A Chain A, Crystal Structure Of Unliganded Pde5a Gaf Domain Length = 431 Back     alignment and structure
>pdb|3MF0|A Chain A, Crystal Structure Of Pde5a Gaf Domain (89-518) Length = 432 Back     alignment and structure
>pdb|2ZMF|A Chain A, Crystal Structure Of The C-Terminal Gaf Domain Of Human Phosphodiesterase 10a Length = 189 Back     alignment and structure
>pdb|2K31|A Chain A, Solution Structure Of Cgmp-Binding Gaf Domain Of Phosphodiesterase 5 Length = 176 Back     alignment and structure
>pdb|1YKD|A Chain A, Crystal Structure Of The Tandem Gaf Domains From A Cyanobacterial Adenylyl Cyclase: Novel Modes Of Ligand-Binding And Dimerization Length = 398 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query210
1mc0_A368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 1e-15
1mc0_A 368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 4e-12
3dba_A180 CONE CGMP-specific 3',5'-cyclic phosphodiesterase 1e-12
3ibj_A 691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 2e-11
3ibj_A 691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 5e-09
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 3e-11
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 4e-09
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 2e-04
2e4s_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod 1e-10
2e4s_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod 5e-04
2w3g_A153 DOSS, two component sensor histidine kinase DEVS ( 2e-07
1ykd_A 398 Adenylate cyclase; GAF domain, bound cyclic AMP li 3e-07
1ykd_A398 Adenylate cyclase; GAF domain, bound cyclic AMP li 5e-05
1ykd_A 398 Adenylate cyclase; GAF domain, bound cyclic AMP li 2e-04
3oov_A169 Methyl-accepting chemotaxis protein, putative; str 5e-06
3trc_A171 Phosphoenolpyruvate-protein phosphotransferase; si 5e-06
3ci6_A171 Phosphoenolpyruvate-protein phosphotransferase; PE 8e-06
3e0y_A181 Conserved domain protein; APC87688.2, geobacter su 2e-05
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Length = 368 Back     alignment and structure
 Score = 73.5 bits (180), Expect = 1e-15
 Identities = 33/127 (25%), Positives = 49/127 (38%), Gaps = 28/127 (22%)

Query: 43  STPEIRIPWGCGIVGYVAESGEPVNIPDAYLVS--TPQIRIPWGCGIVCYLAESGEPVNI 100
            + EIRIP   GI G+VA +G+ +NIPDAY        +    G      L        I
Sbjct: 240 ESYEIRIPADQGIAGHVATTGQILNIPDAYAHPLFYRGVDDSTGFRTRNILC-----FPI 294

Query: 101 PDA-------YLLINKFDDLAFSKNDENFVEA--------------YEKAVIAMAKQSVT 139
            +          L+NK +   FSK DE+   A              Y+K   A  +  + 
Sbjct: 295 KNENQEVIGVAELVNKINGPWFSKFDEDLATAFSIYCGISIAHSLLYKKVNEAQYRSHLA 354

Query: 140 LDVLSYH 146
            +++ Y 
Sbjct: 355 NEMMMYL 361
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Length = 368 Back     alignment and structure
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus} Length = 180 Back     alignment and structure
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Length = 691 Back     alignment and structure
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Length = 691 Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Length = 878 Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Length = 878 Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Length = 878 Back     alignment and structure
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A* Length = 153 Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Length = 398 Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Length = 398 Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Length = 398 Back     alignment and structure
>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens} Length = 169 Back     alignment and structure
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii} Length = 171 Back     alignment and structure
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP} Length = 171 Back     alignment and structure
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens} Length = 181 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query210
3ibj_A 691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 99.66
3dba_A180 CONE CGMP-specific 3',5'-cyclic phosphodiesterase 99.65
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 99.43
2zmf_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 99.19
2e4s_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod 99.07
3mmh_A167 FRMSR, methionine-R-sulfoxide reductase; oxidoredu 99.03
3rfb_A171 Putative uncharacterized protein; FRMSR, GAF, oxid 98.99
1vhm_A195 Protein YEBR; structural genomics, unknown functio 98.96
3ksh_A160 Putative uncharacterized protein; FRMSR, free-Met- 98.95
1f5m_A180 GAF; CGMP binding, signaling protein; 1.90A {Sacch 98.95
2vjw_A149 GAF-B, GAF family protein; histidine kinase, hypox 98.79
1ykd_A 398 Adenylate cyclase; GAF domain, bound cyclic AMP li 98.76
1ykd_A398 Adenylate cyclase; GAF domain, bound cyclic AMP li 98.72
1mc0_A368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 98.72
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 98.71
3oov_A169 Methyl-accepting chemotaxis protein, putative; str 98.64
3trc_A171 Phosphoenolpyruvate-protein phosphotransferase; si 98.58
2w3g_A153 DOSS, two component sensor histidine kinase DEVS ( 98.56
3e0y_A181 Conserved domain protein; APC87688.2, geobacter su 98.55
3ibj_A 691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 98.51
3cit_A160 Sensor histidine kinase; MEGA: 3.30.450.40, struct 98.5
1mc0_A 368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 98.47
3ci6_A171 Phosphoenolpyruvate-protein phosphotransferase; PE 98.32
3k2n_A177 Sigma-54-dependent transcriptional regulator; PSI- 98.3
3o5y_A165 Sensor protein; GAF domain, histidine, kinase, PSI 98.0
3hcy_A151 Putative two-component sensor histidine kinase PR; 97.97
2k2n_A172 Sensor protein, SYB-CPH1(GAF); phytochrome, GAF do 97.94
3p01_A184 Two-component response regulator; PSI-2, midwest c 97.89
2lb5_A208 Sensor histidine kinase; PCB, transferase, GAF dom 97.74
2qyb_A181 Membrane protein, putative; GAF domain, domain of 97.63
4glq_A171 Methyl-accepting chemotaxis protein; chromophore, 94.25
1tbf_A 347 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 93.84
2our_A 331 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod 80.2
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Back     alignment and structure
Probab=99.66  E-value=7.8e-17  Score=154.50  Aligned_cols=141  Identities=27%  Similarity=0.345  Sum_probs=118.1

Q ss_pred             CCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCC-Cccceecccceeecc-------chhhhhccCCCCCC
Q psy14372         44 TPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCG-IVCYLAESGEPVNIP-------DAYLLINKFDDLAF  115 (210)
Q Consensus        44 ~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d-~tGy~t~s~l~vPI~-------~V~qliNK~~g~~F  115 (210)
                      ...+++|++.|++|+|+.+|++++|+|++.    |+||....+ .+|+.++|.+|+||.       ||+.+.|+..+.+|
T Consensus       241 ~~~~~~~~~~gi~g~v~~~g~~v~i~d~~~----d~~~~~~~~~~~g~~~rS~L~vPL~~~~g~viGVL~l~~~~~~~~f  316 (691)
T 3ibj_A          241 SYEIRIPADQGIAGHVATTGQILNIPDAYA----HPLFYRGVDDSTGFRTRNILCFPIKNENQEVIGVAELVNKINGPWF  316 (691)
T ss_dssp             CCEEEEETTSHHHHHHHHHCSCEEESCSTT----STTC------CCSCCCCCEEEEECCCSSSCCCEEEEEEEESSSSSC
T ss_pred             ccceeccCCCCHHHHHHHhCCEEEecCccc----CccccchhhcccCCeeeeEEEEeEECCCCCEEEEEEEEECCCCCCC
Confidence            467899999999999999999999999999    999987765 689999999999995       58889999888899


Q ss_pred             ChhhHHHHHH--------------HHHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHccCCCcCCCccccce--eEeeEE
Q psy14372        116 SKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSV--TLDVLS  179 (210)
Q Consensus       116 t~~De~~le~--------------ye~~~~~~ak~~v~levLsyH~~~s~~e~~~l~~~~~~~~ip~~~~~~--~l~~~~  179 (210)
                      ++.|..++++              |++..+...+++++.|+++||++++.+|+++|+.    ..+|+.. .+  .+..|+
T Consensus       317 ~~~d~~ll~~lA~~~aiAIena~l~~~l~~~~~~~~~~~e~l~~~~~~~~~e~~~ll~----~~i~~~~-~~~~~~~~f~  391 (691)
T 3ibj_A          317 SKFDEDLATAFSIYCGISIAHSLLYKKVNEAQYRSHLANEMMMYHMKVSDDEYTKLLH----DGIQPVA-AIDSNFASFT  391 (691)
T ss_dssp             CTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCHHHHHHHCS----SCCCCST-TTCTTTTSTT
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHh----cCCCchh-hhhhhccccc
Confidence            9999999987              7888889999999999999999999999999987    5577764 33  677788


Q ss_pred             EecCCChhHHHHHHH
Q psy14372        180 YHASASLEDAQRLRR  194 (210)
Q Consensus       180 fh~d~~~~e~~~l~~  194 (210)
                      | .+.++++.+.+++
T Consensus       392 f-~~~~l~~~~~~~~  405 (691)
T 3ibj_A          392 Y-TPRSLPEDDTSMA  405 (691)
T ss_dssp             C-CGGGSCSSSHHHH
T ss_pred             c-CCcCCCchHHHHH
Confidence            8 5666666666554
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus} Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Back     alignment and structure
>2zmf_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 10A; GAF domain, phosphodiesterase, CGMP-binding, HYD nucleotide-binding, structural genomics; HET: MSE CMP; 2.10A {Homo sapiens} Back     alignment and structure
>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME MRD; 1.25A {Neisseria meningitidis} SCOP: d.110.2.0 Back     alignment and structure
>3rfb_A Putative uncharacterized protein; FRMSR, GAF, oxidoreductase, SME; HET: SME; 2.30A {Streptococcus pneumoniae} Back     alignment and structure
>1vhm_A Protein YEBR; structural genomics, unknown function; HET: MES; 2.10A {Escherichia coli} SCOP: d.110.2.1 Back     alignment and structure
>3ksh_A Putative uncharacterized protein; FRMSR, free-Met-R-SO, oxidoreductase; 1.50A {Staphylococcus aureus} SCOP: d.110.2.0 PDB: 3ksf_A 3ksi_A 3ksg_A* Back     alignment and structure
>1f5m_A GAF; CGMP binding, signaling protein; 1.90A {Saccharomyces cerevisiae} SCOP: d.110.2.1 PDB: 3ko6_A* Back     alignment and structure
>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing, hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis} PDB: 2vks_A Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Back     alignment and structure
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Back     alignment and structure
>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens} Back     alignment and structure
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii} Back     alignment and structure
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A* Back     alignment and structure
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens} Back     alignment and structure
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Back     alignment and structure
>3cit_A Sensor histidine kinase; MEGA: 3.30.450.40, structural genomics, sensor histidine KIN pseudomonas syringae, PSI-2; HET: MSE; 1.90A {Pseudomonas syringae PV} Back     alignment and structure
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Back     alignment and structure
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP} Back     alignment and structure
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls} Back     alignment and structure
>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics, protein S initiative; 2.45A {Bacillus halodurans} Back     alignment and structure
>3hcy_A Putative two-component sensor histidine kinase PR; two-component sensor histidine kinase protein, structural GE PSI, MCSG; 2.80A {Sinorhizobium meliloti} Back     alignment and structure
>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A* Back     alignment and structure
>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP} Back     alignment and structure
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A* Back     alignment and structure
>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca} Back     alignment and structure
>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A* Back     alignment and structure
>1tbf_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5A, hydrolase; HET: VIA; 1.30A {Homo sapiens} SCOP: a.211.1.2 PDB: 1t9s_A* 1xoz_A* 1xp0_A* 2chm_A* 3tge_A* 3tgg_A* 3hc8_A* 3hdz_A* 1t9r_A* 3sie_A* 3shy_A* 3shz_A* 3b2r_A* 2h44_A* 2h42_A* 2h40_A* 1rkp_A* 1udt_A* 1udu_A* 1uho_A* ... Back     alignment and structure
>2our_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A; PDE10, substrate specificity, hydrolase; HET: CMP; 1.45A {Homo sapiens} PDB: 2ous_A 2ouu_A* 3sn7_A* 3sni_A* 3snl_A* 4dff_A* 2wey_A* 2oun_A* 2oup_A 2ouq_A* 2ouv_A 2ouy_A* 4ael_A* 2y0j_A* 4ddl_A* 3uuo_A* 3ui7_A* 2o8h_A* 2ovv_A* 2ovy_A* ... Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 210
d1vhma_159 d.110.2.1 (A:) Hypothetical protein YebR {Escheric 6e-05
d1f5ma_176 d.110.2.1 (A:) Hypothetical protein ykl069wp {Bake 8e-05
>d1vhma_ d.110.2.1 (A:) Hypothetical protein YebR {Escherichia coli [TaxId: 562]} Length = 159 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Hypothetical protein YebR
species: Escherichia coli [TaxId: 562]

 Score = 39.7 bits (92), Expect = 6e-05
 Identities = 20/125 (16%), Positives = 35/125 (28%), Gaps = 6/125 (4%)

Query: 10  ASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIP 69
           ++ L   +        YL E    V  P  +      +RIP G G+ G      +   I 
Sbjct: 31  SALLYERLTDINWAGFYLLEDDTLVLGP--FQGKIACVRIPVGRGVCGTAVARNQVQRIE 88

Query: 70  DAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPDAYLLINKFDDLAFSKNDENFVEAYEKA 129
           D ++              +         +      L I+      F+  DE  +     A
Sbjct: 89  DVHVFDGHIACDAASNSEIVLPLVVKNQIIG---VLDIDSTVFGRFTDEDEQGLRQL-VA 144

Query: 130 VIAMA 134
            +   
Sbjct: 145 QLEKV 149
>d1f5ma_ d.110.2.1 (A:) Hypothetical protein ykl069wp {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 176 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query210
d1f5ma_176 Hypothetical protein ykl069wp {Baker's yeast (Sacc 99.28
d1mc0a1187 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF 99.16
d1vhma_159 Hypothetical protein YebR {Escherichia coli [TaxId 98.89
d1mc0a2154 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF 98.57
>d1f5ma_ d.110.2.1 (A:) Hypothetical protein ykl069wp {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Hypothetical protein ykl069wp
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.28  E-value=1.9e-12  Score=103.15  Aligned_cols=78  Identities=21%  Similarity=0.105  Sum_probs=66.7

Q ss_pred             CCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc-------chhhhhccCCCCCC
Q psy14372         43 STPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP-------DAYLLINKFDDLAF  115 (210)
Q Consensus        43 ~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~-------~V~qliNK~~g~~F  115 (210)
                      ...+++||+++||+|+|+.||+|++|+|++.    ||||...    ++.++|.+|+||.       ||+.+.|+..+ .|
T Consensus        85 ~~~~~~i~~g~Gi~G~v~~~g~~i~v~D~~~----dpr~~~~----~~~~~S~l~vPl~~~~g~~~GVl~v~s~~~~-~F  155 (176)
T d1f5ma_          85 KVACQMIQFGKGVCGTAASTKETQIVPDVNK----YPGHIAC----DGETKSEIVVPIISNDGKTLGVIDIDCLDYE-GF  155 (176)
T ss_dssp             SCCCSEEETTSHHHHHHHHHTSCEEESCGGG----STTCCCS----STTCCEEEEEEEECTTSCEEEEEEEEESSTT-CC
T ss_pred             CccceeecCCCcHHHHHHHhCCeEEecCccc----Ccchhhc----cccccceEEecccccCCcEEEEEEeccCCCC-Cc
Confidence            3567899999999999999999999999999    9998643    4567899999995       48888888766 79


Q ss_pred             ChhhHHHHHHHHHH
Q psy14372        116 SKNDENFVEAYEKA  129 (210)
Q Consensus       116 t~~De~~le~ye~~  129 (210)
                      ++.|+++++.+...
T Consensus       156 ~~~d~~~l~~~A~~  169 (176)
T d1f5ma_         156 DHVDKEFLEKLAKL  169 (176)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999986554
>d1mc0a1 d.110.2.1 (A:215-401) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1vhma_ d.110.2.1 (A:) Hypothetical protein YebR {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1mc0a2 d.110.2.1 (A:402-555) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure