Psyllid ID: psy8191

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-------220-------230-------240-------250-------
MIISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
ccccccEEEEEcccccccccccccccccccEEEEcccEEEEEcccccEEccccccccHHHHHHHHHHccccccccccccccccccccccEEEEEccHHHHHHHHHHHHccccccEEEEEEEEEcccccEEEccccccccccEEEEEcccccccccEEEEEEEEEcccccccEEEEEEEccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHccccc
ccccccEEEEEcccccccccccccccccccEEEEcccEEEEEcccccEEcccccccccHHHHHHHHHccHHcccccccEEEEEcccccEEEEEEccHHHHHHHHHHHHHcccEEEEEEEEEcccccccEEcccccccccccEEEEEEEcccccccEEHHHHHHHcHHccccEEEEEEEEccccccEEEEEHHHcccccccccccccccccccccccHHHHHHHccccccccccEEEEEccccHHHHHHHHHHHHccc
MIISGYELIiikpkknfflnkteKKVIKLDIIYEDNEIIILnksaglvvhpaignlsgtLFDNLLEIYpflinvpragivhrldknssgLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAImrnphnrikmtvsknfnakpalTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGhgivgdnlygkkysksLIFNRQALHAYKlglihpknnlklkwrinlpddisKLITFSGIKWI
miisgyeliiikpkknfflnktEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
MIISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
**ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKW*
*IISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
MIISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
****GYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MIISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGIKWI
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 ?
Query257 2.2.26 [Sep-21-2011]
Q8XYX8358 Ribosomal large subunit p yes N/A 0.961 0.689 0.416 1e-61
Q9JVB6374 Ribosomal large subunit p yes N/A 0.937 0.644 0.446 3e-52
Q9K0B0374 Ribosomal large subunit p yes N/A 0.937 0.644 0.442 8e-52
Q82WZ5344 Ribosomal large subunit p yes N/A 0.859 0.642 0.446 1e-49
Q9PET9331 Ribosomal large subunit p yes N/A 0.836 0.649 0.462 1e-49
Q87AR7331 Ribosomal large subunit p yes N/A 0.836 0.649 0.457 8e-49
P65836326 Ribosomal large subunit p yes N/A 0.859 0.677 0.424 1e-47
P65837326 Ribosomal large subunit p N/A N/A 0.859 0.677 0.424 1e-47
Q8ZBV7325 Ribosomal large subunit p yes N/A 0.844 0.667 0.452 3e-47
P33643326 Ribosomal large subunit p N/A N/A 0.859 0.677 0.428 4e-47
>sp|Q8XYX8|RLUD_RALSO Ribosomal large subunit pseudouridine synthase D OS=Ralstonia solanacearum (strain GMI1000) GN=rluD PE=3 SV=1 Back     alignment and function desciption
 Score =  236 bits (601), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 107/257 (41%), Positives = 164/257 (63%), Gaps = 10/257 (3%)

Query: 3   ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFD 62
           + G + I + P++    N    + + LD++YED+ ++++NK AGLVVHPA GN SGT+ +
Sbjct: 90  VCGGDRIEVVPQRADDENAFVAEPVDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLN 149

Query: 63  NLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWG 122
            LL  YP    +PRAGIVHRLDK +SGLMVVA+++ +   LV QL+   V+R YLA+VWG
Sbjct: 150 GLLHRYPQAAGLPRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWG 209

Query: 123 IPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTG 182
                G I+A I R+P +R +M + +  + KPA T+++ L    + +  +SL++C L+TG
Sbjct: 210 ETPEAGTIDAPIGRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETG 269

Query: 183 RTHQIRVHMQWLGHGIVGDNLYGKKYSKS----------LIFNRQALHAYKLGLIHPKNN 232
           RTHQIRVH +  GH ++GD +Y + + +             F RQALHA +LGL+HP + 
Sbjct: 270 RTHQIRVHFESEGHPLLGDPVYTRNFRRGRPQTIKAPLPAPFARQALHAVRLGLVHPASG 329

Query: 233 LKLKWRINLPDDISKLI 249
             + W   +PDD+++L+
Sbjct: 330 QSVHWHAGVPDDLAELM 346
Responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA.
Ralstonia solanacearum (strain GMI1000) (taxid: 267608)
EC: 5EC: .EC: 4EC: .EC: 9EC: 9EC: .EC: 2EC: 3
>sp|Q9JVB6|RLUD_NEIMA Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup A / serotype 4A (strain Z2491) GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|Q9K0B0|RLUD_NEIMB Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup B (strain MC58) GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|Q82WZ5|RLUD_NITEU Ribosomal large subunit pseudouridine synthase D OS=Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|Q9PET9|RLUD_XYLFA Ribosomal large subunit pseudouridine synthase D OS=Xylella fastidiosa (strain 9a5c) GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|Q87AR7|RLUD_XYLFT Ribosomal large subunit pseudouridine synthase D OS=Xylella fastidiosa (strain Temecula1 / ATCC 700964) GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|P65836|RLUD_SALTY Ribosomal large subunit pseudouridine synthase D OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rluD PE=1 SV=2 Back     alignment and function description
>sp|P65837|RLUD_SALTI Ribosomal large subunit pseudouridine synthase D OS=Salmonella typhi GN=rluD PE=3 SV=2 Back     alignment and function description
>sp|Q8ZBV7|RLUD_YERPE Ribosomal large subunit pseudouridine synthase D OS=Yersinia pestis GN=rluD PE=3 SV=1 Back     alignment and function description
>sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D OS=Escherichia coli (strain K12) GN=rluD PE=1 SV=4 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 ?
Query257
399017609352 pseudouridine synthase, RluA family [Her 0.984 0.718 0.507 3e-74
340786962350 ribosomal large subunit pseudouridine sy 0.988 0.725 0.505 5e-73
409406732 372 ribosomal large subunit pseudouridine sy 0.964 0.666 0.542 4e-72
134095125318 pseudouridine synthase [Herminiimonas ar 0.988 0.798 0.501 6e-72
152981261342 ribosomal large subunit pseudouridine sy 0.988 0.742 0.509 8e-72
415913308349 Pseudouridine synthase, partial [Herbasp 0.984 0.724 0.523 5e-71
329902613355 Ribosomal large subunit pseudouridine sy 0.984 0.712 0.496 9e-71
395762800341 ribosomal large subunit pseudouridine sy 0.984 0.741 0.5 3e-70
427403972 364 RluA family pseudouridine synthase [Mass 0.972 0.686 0.486 1e-69
398832780 373 pseudouridine synthase, RluA family [Her 0.968 0.667 0.512 3e-68
>gi|399017609|ref|ZP_10719799.1| pseudouridine synthase, RluA family [Herbaspirillum sp. CF444] gi|398102834|gb|EJL93010.1| pseudouridine synthase, RluA family [Herbaspirillum sp. CF444] Back     alignment and taxonomy information
 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 129/254 (50%), Positives = 184/254 (72%), Gaps = 1/254 (0%)

Query: 1   MIISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTL 60
           M + G E++II P+        + + + LDI++ED  I+++NK AGLVVHPA GN SGTL
Sbjct: 90  MTVLGDEVVIITPQAAPEDTAFQPEPMALDIVHEDKAILVVNKPAGLVVHPAAGNWSGTL 149

Query: 61  FDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMV 120
            + LL  +P L  VPRAGIVHRLDK++SGLMVVAK++ +   LV QL+   V+R+YLA+V
Sbjct: 150 LNGLLHHFPALGGVPRAGIVHRLDKDTSGLMVVAKTLAAQTDLVRQLQARTVKRRYLALV 209

Query: 121 WGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLK 180
           WG P+L+G I+ A+ R+P +RIKM VS++ +AKPA+T+Y+R+A G ++ + +SL+ C L+
Sbjct: 210 WGTPQLSGTIDGAMARHPRDRIKMAVSESMSAKPAITHYQRVAVGALDGRAVSLMHCQLE 269

Query: 181 TGRTHQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRIN 240
           TGRTHQIRVHMQ LG  +VGD LYGK +     F RQAL A++LGL+HP +    +W + 
Sbjct: 270 TGRTHQIRVHMQSLGFALVGDALYGKTHLMPF-FPRQALQAWRLGLVHPTSGKSCQWEVK 328

Query: 241 LPDDISKLITFSGI 254
           LP+D ++L+  +GI
Sbjct: 329 LPEDFTELLGRAGI 342

Source: Herbaspirillum sp. CF444

Species: Herbaspirillum sp. CF444

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria
>gi|340786962|ref|YP_004752427.1| ribosomal large subunit pseudouridine synthase D [Collimonas fungivorans Ter331] gi|340552229|gb|AEK61604.1| Ribosomal large subunit pseudouridine synthase D [Collimonas fungivorans Ter331] Back     alignment and taxonomy information
>gi|409406732|ref|ZP_11255194.1| ribosomal large subunit pseudouridine synthase D [Herbaspirillum sp. GW103] gi|386435281|gb|EIJ48106.1| ribosomal large subunit pseudouridine synthase D [Herbaspirillum sp. GW103] Back     alignment and taxonomy information
>gi|134095125|ref|YP_001100200.1| pseudouridine synthase [Herminiimonas arsenicoxydans] gi|133739028|emb|CAL62076.1| Ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Herminiimonas arsenicoxydans] Back     alignment and taxonomy information
>gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] gi|151281338|gb|ABR89748.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] Back     alignment and taxonomy information
>gi|415913308|ref|ZP_11553637.1| Pseudouridine synthase, partial [Herbaspirillum frisingense GSF30] gi|407761968|gb|EKF70916.1| Pseudouridine synthase, partial [Herbaspirillum frisingense GSF30] Back     alignment and taxonomy information
>gi|329902613|ref|ZP_08273174.1| Ribosomal large subunit pseudouridine synthase D [Oxalobacteraceae bacterium IMCC9480] gi|327548721|gb|EGF33364.1| Ribosomal large subunit pseudouridine synthase D [Oxalobacteraceae bacterium IMCC9480] Back     alignment and taxonomy information
>gi|395762800|ref|ZP_10443469.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium lividum PAMC 25724] Back     alignment and taxonomy information
>gi|427403972|ref|ZP_18894854.1| RluA family pseudouridine synthase [Massilia timonae CCUG 45783] gi|425717211|gb|EKU80176.1| RluA family pseudouridine synthase [Massilia timonae CCUG 45783] Back     alignment and taxonomy information
>gi|398832780|ref|ZP_10590932.1| pseudouridine synthase, RluA family [Herbaspirillum sp. YR522] gi|398222725|gb|EJN09091.1| pseudouridine synthase, RluA family [Herbaspirillum sp. YR522] 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 ?
Query257
UNIPROTKB|Q4K5V9320 rluD "Pseudouridine synthase" 0.848 0.681 0.451 8.1e-44
TIGR_CMR|CPS_3915324 CPS_3915 "ribosomal large subu 0.856 0.679 0.430 2.8e-43
UNIPROTKB|P33643326 rluD "23S rRNA pseudouridine s 0.859 0.677 0.441 1.9e-42
TIGR_CMR|ECH_0486337 ECH_0486 "ribosomal large subu 0.871 0.664 0.436 2.5e-42
TIGR_CMR|CHY_1505305 CHY_1505 "ribosomal large subu 0.929 0.783 0.416 2.9e-39
TIGR_CMR|GSU_0082322 GSU_0082 "ribosomal large subu 0.871 0.695 0.401 2.4e-37
UNIPROTKB|Q9KU20324 rluD "Ribosomal large subunit 0.929 0.737 0.396 4.9e-37
TIGR_CMR|VC_0709324 VC_0709 "ribosomal large subun 0.929 0.737 0.396 4.9e-37
TAIR|locus:2204355430 AT1G76050 [Arabidopsis thalian 0.540 0.323 0.385 3.6e-35
TIGR_CMR|NSE_0146330 NSE_0146 "ribosomal large subu 0.758 0.590 0.417 2.8e-34
UNIPROTKB|Q4K5V9 rluD "Pseudouridine synthase" [Pseudomonas protegens Pf-5 (taxid:220664)] Back     alignment and assigned GO terms
 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 106/235 (45%), Positives = 148/235 (62%)

Query:    27 IKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKN 86
             I+LDI+YED++I+++NK AGLVVHPA G+  GTL + LL   P +INVPRAGIVHRLDK+
Sbjct:    81 IELDIVYEDDDILVINKPAGLVVHPAAGHADGTLLNALLHHIPDIINVPRAGIVHRLDKD 140

Query:    87 SSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTV 146
             ++GLMVVAK+I++   LV QL+   V R Y  +V G+    G INA I R+   R +M V
Sbjct:   141 TTGLMVVAKTIQAQTQLVAQLQSRSVSRIYECIVIGVVTAGGKINAPIGRHGQQRQRMAV 200

Query:   147 SKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGK 206
              +    K A+++Y R+     +  H+   R  L+TGRTHQIRVHM  +   +VGD  YG 
Sbjct:   201 MEG--GKQAVSHY-RVLERFRSHTHV---RVKLETGRTHQIRVHMAHINFPLVGDPAYGG 254

Query:   207 KY------SKSLI-----FNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLIT 250
             ++      S++++     F RQALHA  L L HP   +++ W   LPDD   L++
Sbjct:   255 RFRIPPAASQTMVDSLKNFPRQALHARFLELDHPTTGIRMSWESPLPDDFVWLLS 309
GO:0006364 "rRNA processing" evidence=ISS
TIGR_CMR|CPS_3915 CPS_3915 "ribosomal large subunit pseudouridine synthase D" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|P33643 rluD "23S rRNA pseudouridine synthase" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|ECH_0486 ECH_0486 "ribosomal large subunit pseudouridine synthase, RluA family" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_1505 CHY_1505 "ribosomal large subunit pseudouridine synthase, RluA family" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0082 GSU_0082 "ribosomal large subunit pseudouridine synthase D" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KU20 rluD "Ribosomal large subunit pseudouridine synthase D" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_0709 VC_0709 "ribosomal large subunit pseudouridine synthase D" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TAIR|locus:2204355 AT1G76050 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TIGR_CMR|NSE_0146 NSE_0146 "ribosomal large subunit pseudouridine synthases, RluA family" [Neorickettsia sennetsu str. Miyayama (taxid:222891)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q82WZ5RLUD_NITEU5, ., 4, ., 9, 9, ., 2, 30.44630.85990.6424yesN/A
Q9JVB6RLUD_NEIMA5, ., 4, ., 9, 9, ., 2, 30.44610.93770.6443yesN/A
P0A5T2Y1540_MYCTU5, ., 4, ., 9, 9, ., -0.33860.92210.7694yesN/A
P59838RLUD_BLOFL5, ., 4, ., 9, 9, ., 2, 30.42740.92600.7414yesN/A
P65836RLUD_SALTY5, ., 4, ., 9, 9, ., 2, 30.42430.85990.6779yesN/A
P65834RLUD_ECOL65, ., 4, ., 9, 9, ., 2, 30.42430.85990.6779yesN/A
P65835RLUD_SHIFL5, ., 4, ., 9, 9, ., 2, 30.42430.85990.6779yesN/A
Q9KU20RLUD_VIBCH5, ., 4, ., 9, 9, ., 2, 30.41770.85600.6790yesN/A
O67638Y1758_AQUAE5, ., 4, ., 9, 9, ., -0.37870.85990.6993yesN/A
O50310Y723_CHLP85, ., 4, ., 9, 9, ., -0.37550.82870.6513yesN/A
P0A5T3Y1567_MYCBO5, ., 4, ., 9, 9, ., -0.33860.92210.7694yesN/A
P70870RLUD_BORBU5, ., 4, ., 9, 9, ., 2, 30.41120.78590.6196yesN/A
Q9PET9RLUD_XYLFA5, ., 4, ., 9, 9, ., 2, 30.46210.83650.6495yesN/A
Q45480YLYB_BACSU5, ., 4, ., 9, 9, ., -0.43910.82490.6996yesN/A
P33640RLUD_PSEAE5, ., 4, ., 9, 9, ., 2, 30.44490.85210.6843yesN/A
O25441Y745_HELPY5, ., 4, ., 9, 9, ., -0.35340.92600.7278yesN/A
P75485Y292_MYCPN5, ., 4, ., 9, 9, ., -0.37270.81320.6763yesN/A
P50513RLUD_ZYMMO5, ., 4, ., 9, 9, ., 2, 30.41770.86770.7034yesN/A
Q9CKA6RLUD_PASMU5, ., 4, ., 9, 9, ., 2, 30.40980.85990.6820yesN/A
P44445RLUD_HAEIN5, ., 4, ., 9, 9, ., 2, 30.42010.85990.6820yesN/A
Q8XYX8RLUD_RALSO5, ., 4, ., 9, 9, ., 2, 30.41630.96100.6899yesN/A
Q8DEV0RLUD_VIBVU5, ., 4, ., 9, 9, ., 2, 30.40500.85600.6769yesN/A
P47451Y209_MYCGE5, ., 4, ., 9, 9, ., -0.33760.85210.7110yesN/A
Q8K9E9RLUD_BUCAP5, ., 4, ., 9, 9, ., 2, 30.42250.84430.6888yesN/A
Q8ZBV7RLUD_YERPE5, ., 4, ., 9, 9, ., 2, 30.45290.84430.6676yesN/A
Q45826Y901_CHLAA5, ., 4, ., 9, 9, ., -0.43300.83650.6803yesN/A
Q87AR7RLUD_XYLFT5, ., 4, ., 9, 9, ., 2, 30.45790.83650.6495yesN/A
Q89AD9RLUD_BUCBP5, ., 4, ., 9, 9, ., 2, 30.42790.87930.7129yesN/A
Q8PHN2RLUD_XANAC5, ., 4, ., 9, 9, ., 2, 30.43270.83650.6495yesN/A
Q8P682RLUD_XANCP5, ., 4, ., 9, 9, ., 2, 30.42850.83650.6495yesN/A
P57481RLUD_BUCAI5, ., 4, ., 9, 9, ., 2, 30.44010.92990.7660yesN/A
Q9L7A7RLUD_HAEDU5, ., 4, ., 9, 9, ., 2, 30.42730.84820.6707yesN/A
Q9K0B0RLUD_NEIMB5, ., 4, ., 9, 9, ., 2, 30.44230.93770.6443yesN/A
Q87S65RLUD_VIBPA5, ., 4, ., 9, 9, ., 2, 30.42300.84430.6676yesN/A
Q9ZL98Y745_HELPJ5, ., 4, ., 9, 9, ., -0.35870.85210.6697yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer5.4.990.691

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 ?
Query257
COG0564289 COG0564, RluA, Pseudouridylate synthases, 23S RNA- 2e-80
TIGR00005299 TIGR00005, rluA_subfam, pseudouridine synthase, Rl 2e-77
PRK11180325 PRK11180, rluD, 23S rRNA pseudouridine synthase D; 1e-70
cd02869185 cd02869, PseudoU_synth_RluCD_like, Pseudouridine s 7e-67
cd02557213 cd02557, PseudoU_synth_ScRIB2, Pseudouridine synth 7e-34
pfam00849149 pfam00849, PseudoU_synth_2, RNA pseudouridylate sy 2e-31
PRK11025317 PRK11025, PRK11025, 23S rRNA pseudouridylate synth 6e-31
cd02563223 cd02563, PseudoU_synth_TruC, tRNA pseudouridine is 1e-30
PRK10158219 PRK10158, PRK10158, 23S rRNA/tRNA pseudouridine sy 2e-26
cd02550154 cd02550, PseudoU_synth_Rsu_Rlu_like, Pseudouridine 4e-26
PRK11112257 PRK11112, PRK11112, tRNA pseudouridine synthase C; 1e-23
TIGR01621217 TIGR01621, RluA-like, pseudouridine synthase Rlu f 8e-23
cd02558246 cd02558, PSRA_1, Pseudouridine synthase, a subgrou 3e-09
COG1187248 COG1187, RsuA, 16S rRNA uridine-516 pseudouridylat 4e-04
>gnl|CDD|223638 COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score =  243 bits (622), Expect = 2e-80
 Identities = 107/241 (44%), Positives = 145/241 (60%), Gaps = 8/241 (3%)

Query: 5   GYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNL 64
           G  + I  P++        +  I LDI+YED +++++NK AGLVVHP  G+  GTL + L
Sbjct: 55  GDVVRIPLPEEPEEEKLVPED-IPLDILYEDEDLLVVNKPAGLVVHPGGGHHEGTLVNAL 113

Query: 65  LEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWG-I 123
           L        V R GIVHRLDK++SGL++VAK+ ++   L  Q K   V++ YLA+V G +
Sbjct: 114 L--RHCQDGVERPGIVHRLDKDTSGLLLVAKNREAARELSEQFKQRKVKKTYLALVRGHL 171

Query: 124 PKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGR 183
           P+  G I+A I R+P NR KM V K  + KPA+T+YE L        + +L+    +TGR
Sbjct: 172 PEDEGTIDAPIGRDPKNRKKMAVVKEGSGKPAITHYEVLE---RFGDNYTLVELKPETGR 228

Query: 184 THQIRVHMQWLGHGIVGDNLYG-KKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLP 242
           THQIRVH+  LGH IVGD LYG K  S      RQALHAYKL   HP    +L++   LP
Sbjct: 229 THQIRVHLAHLGHPIVGDPLYGGKDKSAGAGLKRQALHAYKLSFTHPLTGEELEFEAPLP 288

Query: 243 D 243
           +
Sbjct: 289 E 289

Length = 289
>gnl|CDD|161659 TIGR00005, rluA_subfam, pseudouridine synthase, RluA family Back     alignment and domain information
>gnl|CDD|183020 PRK11180, rluD, 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>gnl|CDD|211346 cd02869, PseudoU_synth_RluCD_like, Pseudouridine synthase, RsuA/RluD family Back     alignment and domain information
>gnl|CDD|211331 cd02557, PseudoU_synth_ScRIB2, Pseudouridine synthases similar to Saccharomyces cerevisiae RIB2 Back     alignment and domain information
>gnl|CDD|216150 pfam00849, PseudoU_synth_2, RNA pseudouridylate synthase Back     alignment and domain information
>gnl|CDD|182909 PRK11025, PRK11025, 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>gnl|CDD|211333 cd02563, PseudoU_synth_TruC, tRNA pseudouridine isomerase C Back     alignment and domain information
>gnl|CDD|236659 PRK10158, PRK10158, 23S rRNA/tRNA pseudouridine synthase A; Provisional Back     alignment and domain information
>gnl|CDD|211325 cd02550, PseudoU_synth_Rsu_Rlu_like, Pseudouridine synthase, Rsu/Rlu family Back     alignment and domain information
>gnl|CDD|182971 PRK11112, PRK11112, tRNA pseudouridine synthase C; Provisional Back     alignment and domain information
>gnl|CDD|130682 TIGR01621, RluA-like, pseudouridine synthase Rlu family protein, TIGR01621 Back     alignment and domain information
>gnl|CDD|211332 cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA family Back     alignment and domain information
>gnl|CDD|224108 COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 257
COG0564289 RluA Pseudouridylate synthases, 23S RNA-specific [ 100.0
PRK11180325 rluD 23S rRNA pseudouridine synthase D; Provisiona 100.0
PRK11025317 23S rRNA pseudouridylate synthase C; Provisional 100.0
TIGR00005299 rluA_subfam pseudouridine synthase, RluA family. m 100.0
PRK11112257 tRNA pseudouridine synthase C; Provisional 100.0
cd02563223 PseudoU_synth_TruC tRNA pseudouridine isomerase C: 100.0
PRK10158219 23S rRNA/tRNA pseudouridine synthase A; Provisiona 100.0
cd02558246 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup 100.0
TIGR01621217 RluA-like pseudouridine synthase Rlu family protei 100.0
cd02557213 PseudoU_synth_ScRIB2 PseudoU_synth_ScRIB2_like: Ps 100.0
cd02869185 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: 100.0
KOG1919|consensus371 100.0
cd02550154 PseudoU_synth_Rsu_Rlu_like PseudoU_synth_Rsu_Rlu: 100.0
PF00849164 PseudoU_synth_2: RNA pseudouridylate synthase This 100.0
cd02870146 PseudoU_synth_RsuA_like Pseudouridine synthases ar 100.0
cd02556167 PseudoU_synth_RluB PseudoU_synth_RluB: Pseudouridi 100.0
PRK10839232 16S rRNA pseudouridylate synthase A; Provisional 100.0
cd02553167 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridi 100.0
cd02566168 PseudoU_synth_RluE PseudoU_synth_RluE: Pseudouridi 99.97
cd02555177 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup 99.96
PRK11394217 23S rRNA pseudouridine synthase E; Provisional 99.96
TIGR00093128 pseudouridine synthase. This model identifies pane 99.95
PRK10700289 23S rRNA pseudouridylate synthase B; Provisional 99.94
cd02554164 PseudoU_synth_RluF PseudoU_synth_RluF_like: Pseudo 99.92
PRK10475290 23S rRNA pseudouridine synthase F; Provisional 99.92
COG1187248 RsuA 16S rRNA uridine-516 pseudouridylate synthase 99.84
cd02868226 PseudoU_synth_hTruB2_like PseudoU_synth_ hTRUB2_Li 99.29
cd02572182 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Li 97.96
PRK04099273 truB tRNA pseudouridine synthase B; Provisional 97.7
PRK00989230 truB tRNA pseudouridine synthase B; Provisional 97.68
cd00506210 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudo 97.66
TIGR00431209 TruB tRNA pseudouridine 55 synthase. TruB, the tRN 97.64
PRK00020244 truB tRNA pseudouridine synthase B; Provisional 97.56
PRK02484294 truB tRNA pseudouridine synthase B; Provisional 97.52
PRK03287298 truB tRNA pseudouridine synthase B; Provisional 97.48
PRK14124308 tRNA pseudouridine synthase B; Provisional 97.48
PRK02755295 truB tRNA pseudouridine synthase B; Provisional 97.47
PRK14123305 tRNA pseudouridine synthase B; Provisional 97.47
PRK00130290 truB tRNA pseudouridine synthase B; Provisional 97.47
PRK05389305 truB tRNA pseudouridine synthase B; Provisional 97.4
PRK05033312 truB tRNA pseudouridine synthase B; Provisional 97.4
PRK04270300 H/ACA RNA-protein complex component Cbf5p; Reviewe 97.39
PRK02193279 truB tRNA pseudouridine synthase B; Provisional 97.37
PRK14846 345 truB tRNA pseudouridine synthase B; Provisional 97.36
PRK01851303 truB tRNA pseudouridine synthase B; Provisional 97.33
PRK01550304 truB tRNA pseudouridine synthase B; Provisional 97.33
cd02573277 PseudoU_synth_EcTruB PseudoU_synth_EcTruB: Pseudou 97.31
PRK01528292 truB tRNA pseudouridine synthase B; Provisional 97.29
cd0129187 PseudoU_synth PseudoU_synth: Pseudouridine synthas 97.28
PRK14122 312 tRNA pseudouridine synthase B; Provisional 97.09
TIGR00425322 CBF5 rRNA pseudouridine synthase, putative. This f 97.0
PRK04642300 truB tRNA pseudouridine synthase B; Provisional 96.97
cd02867312 PseudoU_synth_TruB_4 PseudoU_synth_TruB_4: Pseudou 96.95
COG0130271 TruB Pseudouridine synthase [Translation, ribosoma 96.7
cd0016570 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The 92.43
KOG2559|consensus318 92.28
PF01509149 TruB_N: TruB family pseudouridylate synthase (N te 85.16
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=1.7e-65  Score=453.37  Aligned_cols=234  Identities=46%  Similarity=0.647  Sum_probs=207.8

Q ss_pred             ccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCC
Q psy8191           3 ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHR   82 (257)
Q Consensus         3 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR   82 (257)
                      -.||+|.+..+.... ...+.+++++++|||||++++|||||+||+|||+.++..+|+.+++..++...  ..++++|||
T Consensus        53 ~~gd~i~~~~~~~~~-~~~~~~~~~~l~IlyED~~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~--~~~~~~vHR  129 (289)
T COG0564          53 KPGDVVRIPLPEEPE-EEKLVPEDIPLDILYEDEDLLVVNKPAGLVVHPGGGHHEGTLVNALLRHCQDG--VERPGIVHR  129 (289)
T ss_pred             CCCCEEEEecccccc-cccccccCCCccEEEecCCEEEEECCCCCcCcCCCCCccHhHHHHHHHhcccc--CCceeeecc
Confidence            467888888776453 45677788889999999999999999999999998888899999999887544  467899999


Q ss_pred             CCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEe
Q psy8191          83 LDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYER  161 (257)
Q Consensus        83 LD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~v  161 (257)
                      |||+|||+||+|||..+++.|+++|+++.++|+|+|+|.|.+++ +|+|+.|++++...+.++.+....+||.|+|.|++
T Consensus       130 LDkdTSGlll~AK~~~a~~~l~~~f~~r~v~K~Y~Alv~G~~~~~~~~i~~pi~r~~~~~~~~~v~~~~~gk~A~T~~~~  209 (289)
T COG0564         130 LDKDTSGLLLVAKNREAARELSEQFKQRKVKKTYLALVRGHLPEDEGTIDAPIGRDPKNRKKMAVVKEGSGKPAITHYEV  209 (289)
T ss_pred             CCCCCceEEEEECCHHHHHHHHHHHhcCcCcEEEEEEEECcccCCCCEEeeeeecCCcCCceEEEeccCCCCceEEEEEe
Confidence            99999999999999999999999999999999999999999986 69999999999888888877753348999999999


Q ss_pred             eeeccccCCc-EEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCc-cccccccccccccceeEEecCCCCceEEEEE
Q psy8191         162 LATGIINKKH-ISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKY-SKSLIFNRQALHAYKLGLIHPKNNLKLKWRI  239 (257)
Q Consensus       162 l~~~~~~~~~-~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~-~~~~~~~r~~LHa~~l~f~~p~~~~~~~~~a  239 (257)
                      +++.    .. +||++|+|.||||||||+||+++||||+||++||+.. .......|++|||++|.|.||.+++.+.|++
T Consensus       210 l~~~----~~~~tlv~~~~~TGRTHQIRVHl~~lghPI~GD~~Yg~~~~~~~~~~~r~~LHA~~l~f~hp~t~~~~~~~a  285 (289)
T COG0564         210 LERF----GDNYTLVELKPETGRTHQIRVHLAHLGHPIVGDPLYGGKDKSAGAGLKRQALHAYKLSFTHPLTGEELEFEA  285 (289)
T ss_pred             hhcc----CCceEEEEEEeCCCCHhHHHHHHHHCCCCeeCCcccCCchhhcccCcchhhhhhceeEccCCCCCCEEEEec
Confidence            9998    45 7999999999999999999999999999999999852 1111578999999999999999999999999


Q ss_pred             cCCH
Q psy8191         240 NLPD  243 (257)
Q Consensus       240 p~P~  243 (257)
                      |+|.
T Consensus       286 ~~p~  289 (289)
T COG0564         286 PLPE  289 (289)
T ss_pred             CCCC
Confidence            9984

>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family Back     alignment and domain information
>PRK11112 tRNA pseudouridine synthase C; Provisional Back     alignment and domain information
>cd02563 PseudoU_synth_TruC tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi) Back     alignment and domain information
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional Back     alignment and domain information
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family Back     alignment and domain information
>TIGR01621 RluA-like pseudouridine synthase Rlu family protein, TIGR01621 Back     alignment and domain information
>cd02557 PseudoU_synth_ScRIB2 PseudoU_synth_ScRIB2_like: Pseudouridine synthase, Saccharomyces cerevisiae RIB2_like Back     alignment and domain information
>cd02869 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family Back     alignment and domain information
>KOG1919|consensus Back     alignment and domain information
>cd02550 PseudoU_synth_Rsu_Rlu_like PseudoU_synth_Rsu_Rlu: Pseudouridine synthase, Rsu/Rlu family Back     alignment and domain information
>PF00849 PseudoU_synth_2: RNA pseudouridylate synthase This Prosite family is a subset of the Pfam family Back     alignment and domain information
>cd02870 PseudoU_synth_RsuA_like Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA Back     alignment and domain information
>cd02556 PseudoU_synth_RluB PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like Back     alignment and domain information
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional Back     alignment and domain information
>cd02553 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like Back     alignment and domain information
>cd02566 PseudoU_synth_RluE PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE Back     alignment and domain information
>cd02555 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family Back     alignment and domain information
>PRK11394 23S rRNA pseudouridine synthase E; Provisional Back     alignment and domain information
>TIGR00093 pseudouridine synthase Back     alignment and domain information
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional Back     alignment and domain information
>cd02554 PseudoU_synth_RluF PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like Back     alignment and domain information
>PRK10475 23S rRNA pseudouridine synthase F; Provisional Back     alignment and domain information
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd02868 PseudoU_synth_hTruB2_like PseudoU_synth_ hTRUB2_Like: Pseudouridine synthase, humanTRUB2_like Back     alignment and domain information
>cd02572 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Like: Pseudouridine synthase, human dyskerin like Back     alignment and domain information
>PRK04099 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK00989 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>cd00506 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudouridine synthase, TruB family Back     alignment and domain information
>TIGR00431 TruB tRNA pseudouridine 55 synthase Back     alignment and domain information
>PRK00020 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK02484 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK03287 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK14124 tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK02755 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK14123 tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK00130 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK05389 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK05033 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed Back     alignment and domain information
>PRK02193 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK14846 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK01851 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>PRK01550 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>cd02573 PseudoU_synth_EcTruB PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like Back     alignment and domain information
>PRK01528 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi) Back     alignment and domain information
>PRK14122 tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>TIGR00425 CBF5 rRNA pseudouridine synthase, putative Back     alignment and domain information
>PRK04642 truB tRNA pseudouridine synthase B; Provisional Back     alignment and domain information
>cd02867 PseudoU_synth_TruB_4 PseudoU_synth_TruB_4: Pseudouridine synthase homolog 4 Back     alignment and domain information
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>KOG2559|consensus Back     alignment and domain information
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones 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 ?
Query257
1v9f_A325 Crystal Structure Of Catalytic Domain Of Pseudourid 3e-48
1prz_A252 Crystal Structure Of Pseudouridine Synthase Rlud Ca 1e-45
1qyu_A349 Structure Of The Catalytic Domain Of 23s Rrna Pseud 2e-45
1xpi_A231 Crystal Structure Of The Catalytic Domain Of E. Col 6e-24
1v9k_A228 The Crystal Structure Of The Catalytic Domain Of Ps 2e-23
2i82_A217 Crystal Structure Of Pseudouridine Synthase Rlua: I 1e-20
>pdb|1V9F|A Chain A, Crystal Structure Of Catalytic Domain Of Pseudouridine Synthase Rlud From Escherichia Coli Length = 325 Back     alignment and structure 
Iteration: 1

 Score =  187 bits (476), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 102/238 (42%), Positives = 146/238 (61%), Gaps = 17/238 (7%)
Query: 23  EKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHR 82
           E + I LDI+YED +III+NK   LVVHP  GN  GT+ + LL  YP + +VPRAGIVHR
Sbjct: 77  EPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHR 136
Query: 83  LDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRI 142
           LDK+++GLMVVAK++ +   LV  L+   + R+Y A+  G     G ++  I R+P  R 
Sbjct: 137 LDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRT 196
Query: 143 KMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDN 202
            M V  +   KPA+T+Y  +    ++ +    +R  L+TGRTHQIRVHM  + H +VGD 
Sbjct: 197 HMAV--HPMGKPAVTHYRIMEHFRVHTR----LRLRLETGRTHQIRVHMAHITHPLVGDP 250
Query: 203 LYG------KKYSKSLI-----FNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLI 249
           +YG      K  S++ I     F+RQALHA  L L HP + ++++W   +P D+ +LI
Sbjct: 251 VYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMVELI 308
>pdb|1PRZ|A Chain A, Crystal Structure Of Pseudouridine Synthase Rlud Catalytic Module Length = 252 Back     alignment and structure
>pdb|1QYU|A Chain A, Structure Of The Catalytic Domain Of 23s Rrna Pseudouridine Synthase Rlud Length = 349 Back     alignment and structure
>pdb|1XPI|A Chain A, Crystal Structure Of The Catalytic Domain Of E. Coli Pseudouridine Synthase Rluc Length = 231 Back     alignment and structure
>pdb|1V9K|A Chain A, The Crystal Structure Of The Catalytic Domain Of Pseudouridine Synthase Rluc From Escherichia Coli Length = 228 Back     alignment and structure
>pdb|2I82|A Chain A, Crystal Structure Of Pseudouridine Synthase Rlua: Indirect Sequence Readout Through Protein-induced Rna Structure Length = 217 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 ?
Query257
1v9f_A325 Ribosomal large subunit pseudouridine synthase D; 1e-106
2i82_A217 Ribosomal large subunit pseudouridine synthase A; 1e-93
1v9k_A228 Ribosomal large subunit pseudouridine synthase C; 2e-92
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Length = 325 Back     alignment and structure
 Score =  309 bits (794), Expect = e-106
 Identities = 102/238 (42%), Positives = 142/238 (59%), Gaps = 23/238 (9%)

Query: 27  IKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKN 86
           I LDI+YED +III+NK   LVVHP  GN  GT+ + LL  YP + +VPRAGIVHRLDK+
Sbjct: 81  IPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKD 140

Query: 87  SSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTV 146
           ++GLMVVAK++ +   LV  L+   + R+Y A+  G     G ++  I R+P  R  M V
Sbjct: 141 TTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAV 200

Query: 147 SKNFNAKPALTYY---ERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNL 203
                 KPA+T+Y   E         +  + +R  L+TGRTHQIRVHM  + H +VGD +
Sbjct: 201 HP--MGKPAVTHYRIMEHF-------RVHTRLRLRLETGRTHQIRVHMAHITHPLVGDPV 251

Query: 204 YG------KKYSKSLI-----FNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLIT 250
           YG      K  S++ I     F+RQALHA  L L HP + ++++W   +P D+ +LI 
Sbjct: 252 YGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMVELIE 309
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli} Length = 217 Back     alignment and structure
>1v9k_A Ribosomal large subunit pseudouridine synthase C; pseudouridine syntase, RNA binding, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 PDB: 1xpi_A Length = 228 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query257
1v9f_A325 Ribosomal large subunit pseudouridine synthase D; 100.0
1v9k_A228 Ribosomal large subunit pseudouridine synthase C; 100.0
2i82_A217 Ribosomal large subunit pseudouridine synthase A; 100.0
2oml_A189 Ribosomal large subunit pseudouridine synthase E; 100.0
2olw_A217 Ribosomal large subunit pseudouridine synthase E; 100.0
1ksk_A234 Ribosomal small subunit pseudouridine synthase A; 100.0
1vio_A243 Ribosomal small subunit pseudouridine synthase A; 100.0
2gml_A237 Ribosomal large subunit pseudouridine synthase F; 99.97
3dh3_A290 Ribosomal large subunit pseudouridine synthase F; 99.97
1k8w_A327 TRNA pseudouridine synthase B; protein-RNA complex 97.35
2aus_C334 Pseudouridine synthase; isomerase, structural prot 97.18
1r3e_A309 TRNA pseudouridine synthase B; RNA modification, p 97.17
1sgv_A 316 TRNA pseudouridine synthase B; hinged motion, tRNA 97.07
2apo_A357 Probable tRNA pseudouridine synthase B; protein-pr 97.03
3u28_A 400 H/ACA ribonucleoprotein complex subunit 4; pseudou 96.78
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Back     alignment and structure
Probab=100.00  E-value=7.6e-62  Score=437.41  Aligned_cols=243  Identities=42%  Similarity=0.680  Sum_probs=202.0

Q ss_pred             ccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCC
Q psy8191           3 ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHR   82 (257)
Q Consensus         3 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR   82 (257)
                      -.||+|.+..+...  ...+.++.++++|+|||++++|||||+|++||++.+....|+.+.+..+++......++++|||
T Consensus        59 ~~gD~I~v~~~~~~--~~~~~~~~~~~~ilyed~~~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR  136 (325)
T 1v9f_A           59 LGGEQVAINAEIEE--EARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHR  136 (325)
T ss_dssp             -------------------CCCCCCCCCEEEECSSEEEEEECSSCCSSCBTTBSSSSHHHHHHHHCGGGGGSGGGGBCCC
T ss_pred             CCCCEEEEeccccc--cccCCcccCCCeEEEECCCEEEEECCCCCeEecCCCCCCccHHHHHHHHHHhcCCCCceeeecC
Confidence            35777777655432  1234456677899999999999999999999998877677899999877754433457899999


Q ss_pred             CCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEee
Q psy8191          83 LDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERL  162 (257)
Q Consensus        83 LD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl  162 (257)
                      ||++||||||||||.++++.|+++|+++.++|+|+|+|.|.++++|+|+.||.++...+.++.+.  .+|+.|.|.|+++
T Consensus       137 LD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v~G~~~~~g~i~~~i~~~~~~~~~~~v~--~~gk~a~t~~~vl  214 (325)
T 1v9f_A          137 LDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVH--PMGKPAVTHYRIM  214 (325)
T ss_dssp             CCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEEESCCCCCEEEECCEEECSSCTTCEEEC--TTSBCCEEEEEEE
T ss_pred             CCCCCeeEEEEEcCHHHHHHHHHHHHcCCeeEEEEEEEeCCCCCCCEEeeeeeECCCCCEEEEEC--CCCeeEEEEEEEe
Confidence            99999999999999999999999999999999999999999987899999999987777777776  6899999999999


Q ss_pred             eeccccCCcEEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCc--cc---------cccccccccccceeEEecCCC
Q psy8191         163 ATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKY--SK---------SLIFNRQALHAYKLGLIHPKN  231 (257)
Q Consensus       163 ~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~--~~---------~~~~~r~~LHa~~l~f~~p~~  231 (257)
                      +..    .++|+++|+|.||||||||+||+++||||+||.+||+..  ..         .....|++|||++|+|.||.+
T Consensus       215 ~~~----~~~slv~~~l~TGR~HQIRvhla~lG~PI~GD~~Yg~~~~~~~~~~~~~~~~~~~~~r~~LHA~~L~f~hP~~  290 (325)
T 1v9f_A          215 EHF----RVHTRLRLRLETGRTHQIRVHMAHITHPLVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPIS  290 (325)
T ss_dssp             EEC----SSEEEEEEEESCCCTTHHHHHHHHTTCCBTTCTTTTCCCCCCTTCCHHHHHHHHHCCSCSEEEEEEEEECTTT
T ss_pred             EEc----CCeEEEEEEECCCCcHHHHHHHHhCCCceeCChhhCCccccccccchhhhhhccCCcChhhheeeeEeeCCCC
Confidence            987    789999999999999999999999999999999999751  00         013578999999999999999


Q ss_pred             CceEEEEEcCCHHHHHHHHHcC
Q psy8191         232 NLKLKWRINLPDDISKLITFSG  253 (257)
Q Consensus       232 ~~~~~~~ap~P~~~~~~l~~l~  253 (257)
                      ++.+.|+||+|++|..+++.|+
T Consensus       291 ~~~~~~~aplp~~~~~~l~~l~  312 (325)
T 1v9f_A          291 GIEMEWHAPIPQDMVELIEVMR  312 (325)
T ss_dssp             CCEEEEECCCCHHHHHHHHHHH
T ss_pred             CCEEEEEecCcHHHHHHHHHhc
Confidence            9999999999999999998875
>1v9k_A Ribosomal large subunit pseudouridine synthase C; pseudouridine syntase, RNA binding, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 PDB: 1xpi_A Back     alignment and structure
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli} Back     alignment and structure
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli} Back     alignment and structure
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli} Back     alignment and structure
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB: 1ksl_A 1ksv_A* Back     alignment and structure
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural genomics, lyase; 1.59A {Haemophilus influenzae} SCOP: d.265.1.3 d.66.1.5 Back     alignment and structure
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli} Back     alignment and structure
>3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA complex, S4 domain, alpha/beta protein, isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A {Escherichia coli} Back     alignment and structure
>1k8w_A TRNA pseudouridine synthase B; protein-RNA complex, T stem-loop, lyase/RNA complex; HET: FHU; 1.85A {Escherichia coli} SCOP: b.122.1.1 d.265.1.2 PDB: 1zl3_A* 1r3f_A Back     alignment and structure
>2aus_C Pseudouridine synthase; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A* 2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A Back     alignment and structure
>1r3e_A TRNA pseudouridine synthase B; RNA modification, pseudouridylation, lyase-RNA complex; HET: FHU; 2.10A {Thermotoga maritima} SCOP: b.122.1.1 d.265.1.2 PDB: 1ze2_A* 2ab4_A* 1ze1_A Back     alignment and structure
>1sgv_A TRNA pseudouridine synthase B; hinged motion, tRNA modification, structural genomics, PSI, structure initiative; 1.90A {Mycobacterium tuberculosis} SCOP: b.122.1.1 d.265.1.2 Back     alignment and structure
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: b.122.1.1 d.265.1.2 Back     alignment and structure
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_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 257
d1v9fa_250 d.265.1.3 (A:) Ribosomal large subunit pseudouridi 6e-42
d1v9ka_227 d.265.1.3 (A:) Ribosomal large subunit pseudouridi 3e-39
>d1v9fa_ d.265.1.3 (A:) Ribosomal large subunit pseudouridine synthase D, RluD {Escherichia coli [TaxId: 562]} Length = 250 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Pseudouridine synthase
superfamily: Pseudouridine synthase
family: Pseudouridine synthase RsuA/RluD
domain: Ribosomal large subunit pseudouridine synthase D, RluD
species: Escherichia coli [TaxId: 562]

 Score =  141 bits (356), Expect = 6e-42
 Identities = 98/234 (41%), Positives = 138/234 (58%), Gaps = 17/234 (7%)

Query: 27  IKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKN 86
           I LDI+YED +III+NK   LVVHP  GN  GT+ + LL  YP + +VPRAGIVHRLDK+
Sbjct: 6   IPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKD 65

Query: 87  SSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTV 146
           ++GLMVVAK++ +   LV  L+   + R+Y A+  G     G ++  I R+P  R  M V
Sbjct: 66  TTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAV 125

Query: 147 SKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGK 206
                 KPA+T+Y  +       +  + +R  L+TGRTHQIRVHM  + H +VGD +YG 
Sbjct: 126 HP--MGKPAVTHYRIMEH----FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGDPVYGG 179

Query: 207 KYSKS-----------LIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLI 249
           +                 F+RQALHA  L L HP + ++++W   +P D+ +LI
Sbjct: 180 RPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMVELI 233
>d1v9ka_ d.265.1.3 (A:) Ribosomal large subunit pseudouridine synthase C, RluC {Escherichia coli [TaxId: 562]} Length = 227 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 ?
Query257
d1v9fa_250 Ribosomal large subunit pseudouridine synthase D, 100.0
d1v9ka_227 Ribosomal large subunit pseudouridine synthase C, 100.0
d1vioa1174 Ribosomal small subunit pseudouridine 516 synthase 99.95
d1kska4172 Ribosomal small subunit pseudouridine 516 synthase 99.9
d1k8wa5242 Pseudouridine synthase II TruB {Escherichia coli [ 97.44
d1r3ea2228 Pseudouridine synthase II TruB {Thermotoga maritim 97.31
d2ey4a2245 Pseudouridine synthase II TruB {Archaeon Pyrococcu 97.3
d1sgva2233 Pseudouridine synthase II TruB {Mycobacterium tube 97.09
d2apoa2230 Pseudouridine synthase II TruB {Archaeon Methanoco 96.84
>d1v9fa_ d.265.1.3 (A:) Ribosomal large subunit pseudouridine synthase D, RluD {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Pseudouridine synthase
superfamily: Pseudouridine synthase
family: Pseudouridine synthase RsuA/RluD
domain: Ribosomal large subunit pseudouridine synthase D, RluD
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.8e-67  Score=455.67  Aligned_cols=228  Identities=43%  Similarity=0.708  Sum_probs=206.7

Q ss_pred             CcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHH
Q psy8191          22 TEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYI  101 (257)
Q Consensus        22 ~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~  101 (257)
                      ++|++++++|||||+++||||||+||+|||+.+...+++.+.+..++........+++|||||++||||||||||+++++
T Consensus         1 ~~P~~~~l~IlyeD~~~ivvnKP~gl~~hp~~~~~~~t~~~~l~~~~~~~~~~~~~~~vHRLDr~TSGlll~Ak~~~a~~   80 (250)
T d1v9fa_           1 FEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQT   80 (250)
T ss_dssp             CCCCCCCCCEEEECSSEEEEEECSSCCSSCBTTBSSSSHHHHHHHHCGGGGGSGGGGBCCCCCTTCEEEEEEESSHHHHH
T ss_pred             CCCCCCCCCEEEECCCEEEEECCCCCCCcCCCCCCCccHHHHHHHHhhhccCCCceeEEeecCCCCcceEEEecccHHHH
Confidence            35778889999999999999999999999998888889999998887655555678899999999999999999999999


Q ss_pred             HHHHHHHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEecc
Q psy8191         102 HLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKT  181 (257)
Q Consensus       102 ~l~~~f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~T  181 (257)
                      .|+++|+++.|+|+|+|++.|.++.++.++.++.........+.+.  +.||.|.|+|++++..    .++|+++|+|.|
T Consensus        81 ~l~~~f~~~~v~K~Y~a~~~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~gk~a~T~~~~l~~~----~~~slv~~~~~T  154 (250)
T d1v9fa_          81 RLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVH--PMGKPAVTHYRIMEHF----RVHTRLRLRLET  154 (250)
T ss_dssp             HHHHHHHTTCSEEEEEEEEESCCCCCEEEECCEEECSSCTTCEEEC--TTSBCCEEEEEEEEEC----SSEEEEEEEESC
T ss_pred             hhhhhhccceEeEEeeeeeccccccccccccccccCCcccceeEEC--CCCeeccccchhhhcc----cCceeEEEEecc
Confidence            9999999999999999999999998899999998877777777776  7899999999999998    899999999999


Q ss_pred             CCcchHHHHHHHcCCceecCCCCCCCcccc-----------ccccccccccceeEEecCCCCceEEEEEcCCHHHHHHHH
Q psy8191         182 GRTHQIRVHMQWLGHGIVGDNLYGKKYSKS-----------LIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLIT  250 (257)
Q Consensus       182 GRtHQIR~hla~lG~PIvGD~~Yg~~~~~~-----------~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P~~~~~~l~  250 (257)
                      |||||||+||+++||||+||.+||+.....           ...+|++|||++|+|.||.+++.+.|+||+|++|.++++
T Consensus       155 GR~HQIRvHla~lG~PIlGD~~YG~~~~~~~~~~~~~~~~~~~~~r~~LHA~~L~f~hP~t~~~~~~~aplP~df~~~l~  234 (250)
T d1v9fa_         155 GRTHQIRVHMAHITHPLVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMVELIE  234 (250)
T ss_dssp             CCTTHHHHHHHHTTCCBTTCTTTTCCCCCCTTCCHHHHHHHHHCCSCSEEEEEEEEECTTTCCEEEEECCCCHHHHHHHH
T ss_pred             cchHHHHHHHHHhCCccceeccCcccccccccccHHHHHHHhccchhhhhcCccccccCCCCCeEEEEeCCcHHHHHHHH
Confidence            999999999999999999999999763221           135789999999999999999999999999999999999


Q ss_pred             HcCCC
Q psy8191         251 FSGIK  255 (257)
Q Consensus       251 ~l~~~  255 (257)
                      .|+++
T Consensus       235 ~L~~~  239 (250)
T d1v9fa_         235 VMRAD  239 (250)
T ss_dssp             HHHHH
T ss_pred             HHhhH
Confidence            88653
>d1v9ka_ d.265.1.3 (A:) Ribosomal large subunit pseudouridine synthase C, RluC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1vioa1 d.265.1.3 (A:58-231) Ribosomal small subunit pseudouridine 516 synthase RsuA {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1kska4 d.265.1.3 (A:60-231) Ribosomal small subunit pseudouridine 516 synthase RsuA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1k8wa5 d.265.1.2 (A:9-250) Pseudouridine synthase II TruB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1r3ea2 d.265.1.2 (A:10-237) Pseudouridine synthase II TruB {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2ey4a2 d.265.1.2 (A:8-252) Pseudouridine synthase II TruB {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1sgva2 d.265.1.2 (A:3-235) Pseudouridine synthase II TruB {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d2apoa2 d.265.1.2 (A:17-246) Pseudouridine synthase II TruB {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure