Citrus Sinensis ID: 017072

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-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------38
MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSRKLS
ccccccEEEEcccHHHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHHHHHHcccEEEEEccccEEEEEEccccccccEEEEEccccccHHHHHHHHHHHHHcccccEEEEEEccccccccccHHHHHHHHHHHHHHcccccccEEEEEEEcccccccccEEEEEEccccccccEEEEEccccEEEEEEEEEccccHHHHHHHHHHHHHHHHHcccccEEEEcccccccccccccEEEEEEEEEEccEEEEEEcccccccccccHHHHHHccccccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccccEEEEccccHHHHHHHHHHHHHcccEEEEEEcccccEEEEEEEEEEccccccccc
ccccccEEEEccHHHHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHHHHHHccccEEEEEcccEEEEEEccEEEcccEEEEEccccccHHHHHHHHHHHHHHccccEEEEEEEcccccccccHHHHHHHHHHHHHHccccccccEEEEEEcccccccccEEEEEEccccccccEEEEccccEEEEEEEEEEEcccHHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccccEEEEEEEEcccEEEEcHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccEcEEEEccccHHHHHHHHHHHHHcccEEEEEccccccEEEEEEEEEcccccccccc
mgkktsykrlkgsqsLRQRLVLStlastpvliddiraddtmpglrphEISLLRLLERICDDCVVEINEtgteleykpgivmggrnlvhdcgvsrsigyflepLILVglfakkpisirlrgitndpkdpsvdtfrsttlpllkrfgvpseglelkiesrgsppdgggeviltiPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFnrllpdvhiftdhragpqagkspgygISLVAEttsgcfisVDTAVsyargevdeieydekrelmppdnvGEQIASCLLEEIAkggvvdstHQGLLFLLCalsepdvskvrvgklspyGIEMLRNIFDFLdirfdimpdpstgtVILRCVGCGYKNLSRKLS
mgkktsykrlkgsqslrqrlvlstlastpvliddiraddtmpgLRPHEISLLRLLERICDDCVVEINEtgteleykpgivMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLrgitndpkdpsvdtfrsttlpllkrfgvpseGLELKiesrgsppdgggeVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIeydekrelmppDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCalsepdvskvrvgklspygIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSRKLS
MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSRKLS
******************RLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGIT**********F*STTLPLLKRFGV*******************GEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYD*********NVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKN******
******Y***KGSQSLRQRLVLSTLASTPVLIDDIRAD****GLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRA****GKSPGYGISLVAETTSGCFISVDTAVS********************DNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSR***
***********GSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSRKLS
****TSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVS***************ELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLS****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCVGCGYKNLSRKLS
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 ?
Query378 2.2.26 [Sep-21-2011]
Q9C578375 Probable RNA 3'-terminal yes no 0.978 0.986 0.706 1e-146
Q54S38371 Probable RNA 3'-terminal yes no 0.968 0.986 0.452 9e-90
Q9Y2P8373 RNA 3'-terminal phosphate yes no 0.939 0.951 0.486 1e-86
Q2KHX8373 RNA 3'-terminal phosphate yes no 0.968 0.981 0.469 2e-86
Q9JJT0373 RNA 3'-terminal phosphate yes no 0.939 0.951 0.481 3e-86
P56175384 Probable RNA 3'-terminal yes no 0.939 0.924 0.421 2e-78
Q09870363 Probable RNA 3'-terminal yes no 0.931 0.969 0.411 3e-69
Q23400379 Probable RNA 3'-terminal yes no 0.939 0.936 0.364 5e-60
Q08096367 RNA 3'-terminal phosphate yes no 0.931 0.959 0.339 3e-54
Q2HJ88366 RNA 3'-terminal phosphate no no 0.896 0.926 0.275 6e-26
>sp|Q9C578|RCL1_ARATH Probable RNA 3'-terminal phosphate cyclase-like protein OS=Arabidopsis thaliana GN=At5g22100 PE=2 SV=1 Back     alignment and function desciption
 Score =  516 bits (1330), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 263/372 (70%), Positives = 314/372 (84%), Gaps = 2/372 (0%)

Query: 8   KRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEIN 67
           K++KGSQS RQRL+LSTL+STP+ ID+IRAD+T+PGLRPHE++LLRLLE + DD VV+IN
Sbjct: 5   KKMKGSQSFRQRLLLSTLSSTPISIDEIRADETIPGLRPHEVNLLRLLEIVTDDAVVDIN 64

Query: 68  ETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKD 127
           ETGT L+YKPG ++GG+NLVH C +SRSIGY+LEPL+L+GLF KKP+SIRL+GITNDP+D
Sbjct: 65  ETGTRLKYKPGTIVGGKNLVHSCSLSRSIGYYLEPLLLLGLFGKKPLSIRLKGITNDPRD 124

Query: 128 PSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEG 187
            SVDTFRSTTL ++KRFGVP+E LELKIE+RG  P+GGGEV+LT+P +  L AV W++EG
Sbjct: 125 ASVDTFRSTTLNIIKRFGVPAEDLELKIEARGVAPNGGGEVLLTVPNIKTLSAVHWVEEG 184

Query: 188 MVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLV 247
           MVK+IRG +FSTRV+S FE+SM  AARGIFN LLPDVHIF DHRAG QAGKSPGYGISL 
Sbjct: 185 MVKKIRGTTFSTRVTSDFEHSMRFAARGIFNNLLPDVHIFQDHRAGAQAGKSPGYGISLA 244

Query: 248 AETTSGCFISVDTAVSYAR-GEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDS 306
           AETT+GCFIS DT VS  R  E  E++  EK+E  P ++ G ++AS LL+EI KGGVVDS
Sbjct: 245 AETTTGCFISADTTVSCERPDETGELDV-EKKERSPAEDTGVEVASWLLQEIEKGGVVDS 303

Query: 307 THQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCV 366
           THQGLLFLLCALSE DVSKVRVG LSPY +E LRNI +FL ++F I PDP TGTVIL+C 
Sbjct: 304 THQGLLFLLCALSEQDVSKVRVGTLSPYAVETLRNIKEFLGVKFAIKPDPLTGTVILKCT 363

Query: 367 GCGYKNLSRKLS 378
           G G  NLSRKLS
Sbjct: 364 GSGLINLSRKLS 375
Does not have cyclase activity. Plays a role in 40S-ribosomal-subunit biogenesis in the early pre-rRNA processing steps at sites A0, A1 and A2 that are required for proper maturation of the 18S RNA.
Arabidopsis thaliana (taxid: 3702)
>sp|Q54S38|RCL1_DICDI Probable RNA 3'-terminal phosphate cyclase-like protein OS=Dictyostelium discoideum GN=rcl1 PE=1 SV=2 Back     alignment and function description
>sp|Q9Y2P8|RCL1_HUMAN RNA 3'-terminal phosphate cyclase-like protein OS=Homo sapiens GN=RCL1 PE=1 SV=3 Back     alignment and function description
>sp|Q2KHX8|RCL1_BOVIN RNA 3'-terminal phosphate cyclase-like protein OS=Bos taurus GN=RCL1 PE=2 SV=1 Back     alignment and function description
>sp|Q9JJT0|RCL1_MOUSE RNA 3'-terminal phosphate cyclase-like protein OS=Mus musculus GN=Rcl1 PE=2 SV=1 Back     alignment and function description
>sp|P56175|RCL1_DROME Probable RNA 3'-terminal phosphate cyclase-like protein OS=Drosophila melanogaster GN=Rtc1 PE=2 SV=3 Back     alignment and function description
>sp|Q09870|RCL1_SCHPO Probable RNA 3'-terminal phosphate cyclase-like protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC12G12.06c PE=3 SV=1 Back     alignment and function description
>sp|Q23400|RCL1_CAEEL Probable RNA 3'-terminal phosphate cyclase-like protein OS=Caenorhabditis elegans GN=ZK1127.5 PE=3 SV=2 Back     alignment and function description
>sp|Q08096|RCL1_YEAST RNA 3'-terminal phosphate cyclase-like protein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RCL1 PE=1 SV=1 Back     alignment and function description
>sp|Q2HJ88|RTCA_BOVIN RNA 3'-terminal phosphate cyclase OS=Bos taurus GN=RTCA PE=2 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 ?
Query378
255587133377 RNA 3' terminal phosphate cyclase, putat 0.989 0.992 0.792 1e-168
224054450376 predicted protein [Populus trichocarpa] 0.989 0.994 0.762 1e-165
363807520379 uncharacterized protein LOC100778883 [Gl 0.992 0.989 0.721 1e-155
224104625340 predicted protein [Populus trichocarpa] 0.894 0.994 0.775 1e-153
356496398379 PREDICTED: LOW QUALITY PROTEIN: probable 0.992 0.989 0.702 1e-153
225452690376 PREDICTED: probable RNA 3'-terminal phos 0.984 0.989 0.740 1e-153
297808207377 predicted protein [Arabidopsis lyrata su 0.989 0.992 0.704 1e-146
22326964375 RNA 3'-terminal phosphate cyclase-like p 0.978 0.986 0.706 1e-144
449442617377 PREDICTED: probable RNA 3'-terminal phos 0.986 0.989 0.702 1e-144
51968414375 RNA 3'-terminal phosphate cyclase-like p 0.978 0.986 0.706 1e-143
>gi|255587133|ref|XP_002534151.1| RNA 3' terminal phosphate cyclase, putative [Ricinus communis] gi|223525786|gb|EEF28234.1| RNA 3' terminal phosphate cyclase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  596 bits (1537), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 298/376 (79%), Positives = 339/376 (90%), Gaps = 2/376 (0%)

Query: 4   KTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCV 63
           K SYKRLKGSQ+LRQRLVLSTL++TP+LI+DIRADDT+PGLR HE+S LRLLERI DDC 
Sbjct: 3   KISYKRLKGSQNLRQRLVLSTLSATPLLIEDIRADDTLPGLRSHEVSFLRLLERISDDCH 62

Query: 64  VEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITN 123
           +EINETGT+ +YKPGIVMGG++ VHDCGVSRS+GYFLEPLI++ LFAKKP+ IRLRGITN
Sbjct: 63  IEINETGTKFKYKPGIVMGGKHHVHDCGVSRSVGYFLEPLIVLALFAKKPLEIRLRGITN 122

Query: 124 DPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRW 183
           D KDP VDTFRSTTLP+LKRFGVPSEGL LKIESRGSPP GGGEV+L++PIV  L AV W
Sbjct: 123 DSKDPCVDTFRSTTLPMLKRFGVPSEGLGLKIESRGSPPHGGGEVVLSVPIVQSLQAVTW 182

Query: 184 LDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYG 243
            DEGM+KRIRGV++STRVSSQFEN+MIHAARGIFN LLPDVHIFTDH+AGPQAG SPGYG
Sbjct: 183 TDEGMIKRIRGVTYSTRVSSQFENTMIHAARGIFNHLLPDVHIFTDHKAGPQAGNSPGYG 242

Query: 244 ISLVAETTSGCFISVDTAVSYARG-EVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGG 302
           ISLVAETTSGCF+S DTA+SYARG ++ E+E DEK++LMPP++VGEQIAS LLEE+ +GG
Sbjct: 243 ISLVAETTSGCFLSADTAISYARGDDIGEME-DEKKDLMPPEDVGEQIASVLLEEVEQGG 301

Query: 303 VVDSTHQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVI 362
           VVDSTHQ LLFLLCAL   DVSK+RVGKLSPYGIE LR+I DFL ++F I PDPSTGTVI
Sbjct: 302 VVDSTHQALLFLLCALCPQDVSKIRVGKLSPYGIETLRSIRDFLGVKFVIKPDPSTGTVI 361

Query: 363 LRCVGCGYKNLSRKLS 378
           L+CVGCG KNLSRK S
Sbjct: 362 LKCVGCGLKNLSRKSS 377

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224054450|ref|XP_002298266.1| predicted protein [Populus trichocarpa] gi|222845524|gb|EEE83071.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|363807520|ref|NP_001242399.1| uncharacterized protein LOC100778883 [Glycine max] gi|255636967|gb|ACU18816.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|224104625|ref|XP_002313504.1| predicted protein [Populus trichocarpa] gi|222849912|gb|EEE87459.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356496398|ref|XP_003517055.1| PREDICTED: LOW QUALITY PROTEIN: probable RNA 3'-terminal phosphate cyclase-like protein-like [Glycine max] Back     alignment and taxonomy information
>gi|225452690|ref|XP_002282375.1| PREDICTED: probable RNA 3'-terminal phosphate cyclase-like protein [Vitis vinifera] gi|296087784|emb|CBI35040.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|297808207|ref|XP_002871987.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297317824|gb|EFH48246.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|22326964|ref|NP_680196.1| RNA 3'-terminal phosphate cyclase-like protein [Arabidopsis thaliana] gi|14285704|sp|Q9C578.1|RCL1_ARATH RecName: Full=Probable RNA 3'-terminal phosphate cyclase-like protein gi|13374869|emb|CAC34503.1| RNA 3'-terminal phosphate cyclase-like protein [Arabidopsis thaliana] gi|25083405|gb|AAN72070.1| putative RNA 3'-terminal phosphate cyclase [Arabidopsis thaliana] gi|51971755|dbj|BAD44542.1| RNA 3'-terminal phosphate cyclase-like protein [Arabidopsis thaliana] gi|332005600|gb|AED92983.1| RNA 3'-terminal phosphate cyclase-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449442617|ref|XP_004139077.1| PREDICTED: probable RNA 3'-terminal phosphate cyclase-like protein-like [Cucumis sativus] gi|449525110|ref|XP_004169562.1| PREDICTED: probable RNA 3'-terminal phosphate cyclase-like protein-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|51968414|dbj|BAD42899.1| RNA 3'-terminal phosphate cyclase-like protein [Arabidopsis thaliana] 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 ?
Query378
TAIR|locus:504956443375 AT5G22100 [Arabidopsis thalian 0.978 0.986 0.706 4.9e-140
DICTYBASE|DDB_G0282803371 rcl1 "RNA 3'-terminal phosphat 0.968 0.986 0.452 2.8e-89
UNIPROTKB|Q9Y2P8373 RCL1 "RNA 3'-terminal phosphat 0.939 0.951 0.489 5.4e-86
UNIPROTKB|G3V7Z1373 Rcl1 "Protein Rcl1" [Rattus no 0.939 0.951 0.486 5.4e-86
UNIPROTKB|Q2KHX8373 RCL1 "RNA 3'-terminal phosphat 0.939 0.951 0.483 8.9e-86
MGI|MGI:1913275373 Rcl1 "RNA terminal phosphate c 0.939 0.951 0.483 1.4e-85
UNIPROTKB|F1SK46373 RCL1 "Uncharacterized protein" 0.939 0.951 0.486 4.9e-85
UNIPROTKB|E2RAG1373 RCL1 "Uncharacterized protein" 0.939 0.951 0.481 1.3e-84
UNIPROTKB|E1C1K6374 RCL1 "Uncharacterized protein" 0.939 0.949 0.473 1.7e-84
ZFIN|ZDB-GENE-040930-11367 rcl1 "RNA terminal phosphate c 0.941 0.970 0.451 1.3e-82
TAIR|locus:504956443 AT5G22100 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1370 (487.3 bits), Expect = 4.9e-140, P = 4.9e-140
 Identities = 263/372 (70%), Positives = 314/372 (84%)

Query:     8 KRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEIN 67
             K++KGSQS RQRL+LSTL+STP+ ID+IRAD+T+PGLRPHE++LLRLLE + DD VV+IN
Sbjct:     5 KKMKGSQSFRQRLLLSTLSSTPISIDEIRADETIPGLRPHEVNLLRLLEIVTDDAVVDIN 64

Query:    68 ETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKD 127
             ETGT L+YKPG ++GG+NLVH C +SRSIGY+LEPL+L+GLF KKP+SIRL+GITNDP+D
Sbjct:    65 ETGTRLKYKPGTIVGGKNLVHSCSLSRSIGYYLEPLLLLGLFGKKPLSIRLKGITNDPRD 124

Query:   128 PSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEG 187
              SVDTFRSTTL ++KRFGVP+E LELKIE+RG  P+GGGEV+LT+P +  L AV W++EG
Sbjct:   125 ASVDTFRSTTLNIIKRFGVPAEDLELKIEARGVAPNGGGEVLLTVPNIKTLSAVHWVEEG 184

Query:   188 MVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLV 247
             MVK+IRG +FSTRV+S FE+SM  AARGIFN LLPDVHIF DHRAG QAGKSPGYGISL 
Sbjct:   185 MVKKIRGTTFSTRVTSDFEHSMRFAARGIFNNLLPDVHIFQDHRAGAQAGKSPGYGISLA 244

Query:   248 AETTSGCFISVDTAVSYAR-GEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDS 306
             AETT+GCFIS DT VS  R  E  E++  EK+E  P ++ G ++AS LL+EI KGGVVDS
Sbjct:   245 AETTTGCFISADTTVSCERPDETGELDV-EKKERSPAEDTGVEVASWLLQEIEKGGVVDS 303

Query:   307 THQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPDPSTGTVILRCV 366
             THQGLLFLLCALSE DVSKVRVG LSPY +E LRNI +FL ++F I PDP TGTVIL+C 
Sbjct:   304 THQGLLFLLCALSEQDVSKVRVGTLSPYAVETLRNIKEFLGVKFAIKPDPLTGTVILKCT 363

Query:   367 GCGYKNLSRKLS 378
             G G  NLSRKLS
Sbjct:   364 GSGLINLSRKLS 375
GO:0003824 "catalytic activity" evidence=IEA
GO:0003963 "RNA-3'-phosphate cyclase activity" evidence=ISS
GO:0005730 "nucleolus" evidence=IEA
GO:0006396 "RNA processing" evidence=IEA
GO:0042254 "ribosome biogenesis" evidence=IEA
DICTYBASE|DDB_G0282803 rcl1 "RNA 3'-terminal phosphate cyclase family protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|Q9Y2P8 RCL1 "RNA 3'-terminal phosphate cyclase-like protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|G3V7Z1 Rcl1 "Protein Rcl1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q2KHX8 RCL1 "RNA 3'-terminal phosphate cyclase-like protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:1913275 Rcl1 "RNA terminal phosphate cyclase-like 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1SK46 RCL1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2RAG1 RCL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E1C1K6 RCL1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040930-11 rcl1 "RNA terminal phosphate cyclase-like 1" [Danio rerio (taxid:7955)] 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) ?
Q08096RCL1_YEASTNo assigned EC number0.33940.93120.9591yesno
Q54S38RCL1_DICDINo assigned EC number0.45230.96820.9865yesno
Q2KHX8RCL1_BOVINNo assigned EC number0.46990.96820.9812yesno
Q9C578RCL1_ARATHNo assigned EC number0.70690.97880.9866yesno
Q9Y2P8RCL1_HUMANNo assigned EC number0.48650.93910.9517yesno
Q9JJT0RCL1_MOUSENo assigned EC number0.48110.93910.9517yesno
Q09870RCL1_SCHPONo assigned EC number0.41170.93120.9696yesno
Q23400RCL1_CAEELNo assigned EC number0.36450.93910.9366yesno
P56175RCL1_DROMENo assigned EC number0.42140.93910.9244yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
gw1.I.610.1
hypothetical protein (377 aa)
(Populus trichocarpa)
Predicted Functional Partners:
eugene3.00640202
hypothetical protein (1181 aa)
   •• • 0.611
estExt_Genewise1_v1.C_LG_VII2715
hypothetical protein (380 aa)
   •  • 0.528
gw1.X.2964.1
hypothetical protein (516 aa)
   •  • 0.515
gw1.86.17.1
hypothetical protein (573 aa)
   •  • 0.494
gw1.I.4832.1
hypothetical protein (422 aa)
•  •  • 0.492
estExt_fgenesh4_pg.C_LG_XV0629
hypothetical protein (314 aa)
   •    0.452
fgenesh4_pg.C_LG_X000306
hypothetical protein (187 aa)
   •  • 0.445
grail3.0101007501
hypothetical protein (229 aa)
   •  • 0.440
fgenesh4_pm.C_scaffold_140000021
hypothetical protein (212 aa)
   •  • 0.440
grail3.0051015401
hypothetical protein (224 aa)
   •  • 0.431

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query378
TIGR03400360 TIGR03400, 18S_RNA_Rcl1p, 18S rRNA biogenesis prot 0.0
cd00875341 cd00875, RNA_Cyclase_Class_I, RNA 3' phosphate cyc 1e-157
pfam01137330 pfam01137, RTC, RNA 3'-terminal phosphate cyclase 1e-114
COG0430341 COG0430, RCL1, RNA 3'-terminal phosphate cyclase [ 3e-73
cd00295338 cd00295, RNA_Cyclase, RNA 3' phosphate cyclase dom 7e-72
TIGR03399326 TIGR03399, RNA_3prim_cycl, RNA 3'-phosphate cyclas 3e-43
cd00874326 cd00874, RNA_Cyclase_Class_II, RNA 3' phosphate cy 4e-41
PRK04204343 PRK04204, PRK04204, RNA 3'-terminal-phosphate cycl 2e-34
cd01553211 cd01553, EPT_RTPC-like, This domain family include 1e-30
pfam05189101 pfam05189, RTC_insert, RNA 3'-terminal phosphate c 2e-28
>gnl|CDD|234198 TIGR03400, 18S_RNA_Rcl1p, 18S rRNA biogenesis protein RCL1 Back     alignment and domain information 
 Score =  517 bits (1335), Expect = 0.0
 Identities = 198/374 (52%), Positives = 259/374 (69%), Gaps = 17/374 (4%)

Query: 8   KRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEIN 67
            R +GS++ RQRLVLSTL+  PV I  IR+DD  PGLR +E+S LRLLE++ +   +EI+
Sbjct: 1   LRFEGSRNFRQRLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEIS 60

Query: 68  ETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKD 127
            TGT + YKPG++ GG ++ H+C  SR IGY+LEPL+L+  F+KKP+SI L+GITN   D
Sbjct: 61  YTGTTVIYKPGLITGG-SVTHECPTSRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGD 119

Query: 128 PSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEG 187
           PSVDT R+ TLPLLK+FG+P EGLELKI  RG+PP GGGEV L  P++ +L  +   + G
Sbjct: 120 PSVDTIRTATLPLLKKFGIPDEGLELKILKRGAPPLGGGEVELRCPVIKQLKTIHLTERG 179

Query: 188 MVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLV 247
            VKRIRGV++STRVS    N MI AARG+ N LLPDV+I TD   G  +GKSPGYG+SLV
Sbjct: 180 RVKRIRGVAYSTRVSPSLANRMIDAARGVLNNLLPDVYITTDVWKGKNSGKSPGYGLSLV 239

Query: 248 AETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDST 307
           AETT+GC IS +   S     +             P+++G++ A  LLEEI KGG VDST
Sbjct: 240 AETTNGCIISAEAVSSPGEPSL-------------PEDLGKRAAYLLLEEIYKGGCVDST 286

Query: 308 HQGLLFLLCALSEPDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPD---PSTGTVILR 364
           HQ L  LL AL + DVSK+R+GKLS Y +E LR+I +F  + F +  D     +G V+L 
Sbjct: 287 HQPLALLLMALGQEDVSKLRLGKLSEYTVEFLRDIKEFFGVTFKLKDDKSDNGSGKVLLT 346

Query: 365 CVGCGYKNLSRKLS 378
           CVG GY N+S+K++
Sbjct: 347 CVGIGYTNVSKKIA 360

Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only. Length = 360
>gnl|CDD|238447 cd00875, RNA_Cyclase_Class_I, RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded in eukaryotic genomes Back     alignment and domain information
>gnl|CDD|216322 pfam01137, RTC, RNA 3'-terminal phosphate cyclase Back     alignment and domain information
>gnl|CDD|223507 COG0430, RCL1, RNA 3'-terminal phosphate cyclase [RNA processing and modification] Back     alignment and domain information
>gnl|CDD|238183 cd00295, RNA_Cyclase, RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond Back     alignment and domain information
>gnl|CDD|234197 TIGR03399, RNA_3prim_cycl, RNA 3'-phosphate cyclase Back     alignment and domain information
>gnl|CDD|238446 cd00874, RNA_Cyclase_Class_II, RNA 3' phosphate cyclase domain (class II) Back     alignment and domain information
>gnl|CDD|235255 PRK04204, PRK04204, RNA 3'-terminal-phosphate cyclase; Provisional Back     alignment and domain information
>gnl|CDD|238794 cd01553, EPT_RTPC-like, This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC) Back     alignment and domain information
>gnl|CDD|203195 pfam05189, RTC_insert, RNA 3'-terminal phosphate cyclase (RTC), insert domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 378
TIGR03400360 18S_RNA_Rcl1p 18S rRNA biogenesis protein RCL1. Me 100.0
KOG3980361 consensus RNA 3'-terminal phosphate cyclase [RNA p 100.0
TIGR03399326 RNA_3prim_cycl RNA 3'-phosphate cyclase. Members o 100.0
PRK04204343 RNA 3'-terminal-phosphate cyclase; Provisional 100.0
cd00874326 RNA_Cyclase_Class_II RNA 3' phosphate cyclase doma 100.0
cd00875341 RNA_Cyclase_Class_I RNA 3' phosphate cyclase domai 100.0
COG0430341 RCL1 RNA 3'-terminal phosphate cyclase [RNA proces 100.0
cd00295338 RNA_Cyclase RNA 3' phosphate cyclase domain - RNA 100.0
PF01137228 RTC: RNA 3'-terminal phosphate cyclase; InterPro: 100.0
cd01553211 EPT_RTPC-like This domain family includes the Enol 100.0
PF05189103 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC 99.9
PRK12830417 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; 92.84
PRK02427435 3-phosphoshikimate 1-carboxyvinyltransferase; Prov 92.45
PLN02338443 3-phosphoshikimate 1-carboxyvinyltransferase 92.44
PRK11860 661 bifunctional 3-phosphoshikimate 1-carboxyvinyltran 90.46
cd01556409 EPSP_synthase EPSP synthase domain. 3-phosphoshiki 89.19
cd01556409 EPSP_synthase EPSP synthase domain. 3-phosphoshiki 88.19
PRK09369417 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; 87.95
PRK11861673 bifunctional prephenate dehydrogenase/3-phosphoshi 86.48
PRK02427435 3-phosphoshikimate 1-carboxyvinyltransferase; Prov 86.43
COG0128428 AroA 5-enolpyruvylshikimate-3-phosphate synthase [ 85.7
PRK14806735 bifunctional cyclohexadienyl dehydrogenase/ 3-phos 84.49
TIGR01356409 aroA 3-phosphoshikimate 1-carboxyvinyltransferase. 83.8
PRK14806735 bifunctional cyclohexadienyl dehydrogenase/ 3-phos 83.57
PLN02338443 3-phosphoshikimate 1-carboxyvinyltransferase 83.43
TIGR01356409 aroA 3-phosphoshikimate 1-carboxyvinyltransferase. 83.34
cd01554408 EPT-like Enol pyruvate transferases family include 82.57
cd01554408 EPT-like Enol pyruvate transferases family include 81.87
cd01555400 UdpNAET UDP-N-acetylglucosamine enolpyruvyl transf 80.27
>TIGR03400 18S_RNA_Rcl1p 18S rRNA biogenesis protein RCL1 Back     alignment and domain information 
Probab=100.00  E-value=2.1e-107  Score=807.63  Aligned_cols=357  Identities=55%  Similarity=0.927  Sum_probs=341.2

Q ss_pred             EEEeChHHHHHHHHHHhhcCCcEEEeEeeCCCCCCCChHHHHHHHHHHHHHccceeeeeeccceEEEEeCCcccCCceEE
Q 017072            8 KRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIVMGGRNLV   87 (378)
Q Consensus         8 i~~dG~q~lR~alaLS~ltgkpi~I~nIR~~r~~PGL~~qhl~~l~ll~~l~~g~~~~~~~~gt~l~F~Pg~i~~g~~~~   87 (378)
                      ++|.|+|+||+||+||+||||||+|+|||++|+||||++||+++|++++++|+|++++++++||+|+|.||.+++|+ |+
T Consensus         1 ~~f~~~QilR~alaLS~itgkpv~I~nIR~~R~~PGL~~qhl~~l~l~~~i~~a~~~g~~~gst~l~F~Pg~i~gG~-~~   79 (360)
T TIGR03400         1 LRFEGSRNFRQRLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEISYTGTTVIYKPGLITGGS-VT   79 (360)
T ss_pred             CeeechHHHHHHHHHHHhcCCCEEEEEeccCCCCCCcHHHHHHHHHHHHHhcCCeEeeeecCceEEEEECCcccCCe-EE
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999 99


Q ss_pred             EecCCCchhHHHHHHHHHhhhcCCCCeEEEEEeccCCCCCCcHHHHHHHHHHHHhhcCCCCCceEEEEEeeCCCCCCCcE
Q 017072           88 HDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGE  167 (378)
Q Consensus        88 ~d~~tagSi~l~lq~lLp~l~f~~~~~~ltl~GgT~~~~~Ps~Dy~~~v~~p~l~~~G~~~~~~~~~i~krG~~P~GgGe  167 (378)
                      |||+|||||+||||++||+++|++.|++|+|+||||++||||+||+++||+|+|++||++++.+++++.||||||+||||
T Consensus        80 ~d~gtagSitl~lq~lLp~~lf~~~~~~l~l~GgT~v~~sPsvDy~~~v~lp~l~~~G~~~~~~~l~l~~RG~yP~GgGe  159 (360)
T TIGR03400        80 HECPTTRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGDPSVDTIRTATLPLLKKFGIPDEGLELKILKRGAAPLGGGE  159 (360)
T ss_pred             EeCCCCcchHHHHHHHHHHHhhCCCCeEEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCCCCceEEEEEeccccCCCCEE
Confidence            99999999999999999999999999999999999999999999999999999999999444599999999999999999


Q ss_pred             EEEEEecCCCccceEeeecCceeEEEEEEEecccchhHHHHHHHHHHHHhhhcCCceeEEeeccCCCCCCCCCceEEEEE
Q 017072          168 VILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSPGYGISLV  247 (378)
Q Consensus       168 V~~~~~p~~~l~~i~l~~~g~i~~Irg~~~~~~l~~~ia~r~~~~a~~~L~~~~~~v~I~~d~~~~~~~~~~~G~~i~L~  247 (378)
                      |+++++|+++++|++|+++|++++|||+++++++|+++++||+++|++.|++.++|++|++|..++++++.+||++++||
T Consensus       160 V~~~~~p~~~l~~i~l~~~G~v~~irg~~~~~~l~~~v~~r~~~~a~~~L~~~~~~~~i~~~~~~~~~~~~~~G~~i~L~  239 (360)
T TIGR03400       160 VELRCPVIKQLKTIHLTERGKVKRIRGVAYSTRVSPSLANRMIDAARGVLNNLLPDVYITTDVRKGKNSGKSPGYGLSLV  239 (360)
T ss_pred             EEEEEcCccCccceEEEcCCCcEEEEEEEEEccCCHHHHHHHHHHHHHHHHhhCCCcEEEEEecccccCCCCCCeEEEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999777777889999999999


Q ss_pred             EEecCceEEeEecccccCCCCcchhhhhhccCCCChhhHHHHHHHHHHHHHHcCCCCCcCChhHHHHHHhhcCCCcceEE
Q 017072          248 AETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSEPDVSKVR  327 (378)
Q Consensus       248 aet~~g~~~~~d~~~~~g~~~~~~~~~~~~~~~~~aE~vg~~aa~~Ll~~i~~g~~vD~~~qdqlli~mALa~~~~S~i~  327 (378)
                      ||+++||++|+|++++++             .+++||+||++||++|++||+.|||||+||||||++|||||.+++|+++
T Consensus       240 ae~~~g~~~g~~~lg~~~-------------~g~~aE~vg~~aa~~L~~~i~~gg~vD~~lqdqll~~mALa~~~~S~i~  306 (360)
T TIGR03400       240 AETTNGCIISAEAVSSPG-------------EGSLPEDLGKRAAYLLLEEIYRGGCVDSTHQPLALLLMALGQEDVSKLR  306 (360)
T ss_pred             EEeCCCEEEEEEeecCCC-------------CCCCHHHHHHHHHHHHHHHHhcCCccChhHHHHHHHHHHhCCCCcceEE
Confidence            999999999999999882             1289999999999999999999999999999999999999966789999


Q ss_pred             ecCCCHHHHHHHHHHHhhcCcEEEEeeCC---CCCeEEEEEEeeeccccccccC
Q 017072          328 VGKLSPYGIEMLRNIFDFLDIRFDIMPDP---STGTVILRCVGCGYKNLSRKLS  378 (378)
Q Consensus       328 ~g~lT~h~~t~l~v~~~f~~v~f~i~~~~---~~~~~~i~c~G~G~~n~~~~~~  378 (378)
                      ++++|+|++|++|++++|+|++|++++++   +.++++++|.|+||+|++||+.
T Consensus       307 ~~~lt~h~~t~l~vi~~f~~v~f~i~~~~~~~~~~~~~i~~~G~G~~n~~~~~~  360 (360)
T TIGR03400       307 LGKLSEYTVEFLRDLKEFFGVTFKIKDDDSENGSGKVLLSCVGIGYTNVSKKIA  360 (360)
T ss_pred             ecCCCHHHHHHHHHHHHhcCCEEEEEEcccCCCCceEEEEEEeeeeeccccccC
Confidence            99999999999999999999999998642   2367899999999999999974

Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only.
>KOG3980 consensus RNA 3'-terminal phosphate cyclase [RNA processing and modification] Back     alignment and domain information
>TIGR03399 RNA_3prim_cycl RNA 3'-phosphate cyclase Back     alignment and domain information
>PRK04204 RNA 3'-terminal-phosphate cyclase; Provisional Back     alignment and domain information
>cd00874 RNA_Cyclase_Class_II RNA 3' phosphate cyclase domain (class II) Back     alignment and domain information
>cd00875 RNA_Cyclase_Class_I RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded in eukaryotic genomes Back     alignment and domain information
>COG0430 RCL1 RNA 3'-terminal phosphate cyclase [RNA processing and modification] Back     alignment and domain information
>cd00295 RNA_Cyclase RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond Back     alignment and domain information
>PF01137 RTC: RNA 3'-terminal phosphate cyclase; InterPro: IPR023797 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea Back     alignment and domain information
>cd01553 EPT_RTPC-like This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC) Back     alignment and domain information
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea Back     alignment and domain information
>PRK12830 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Reviewed Back     alignment and domain information
>PRK02427 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional Back     alignment and domain information
>PLN02338 3-phosphoshikimate 1-carboxyvinyltransferase Back     alignment and domain information
>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional Back     alignment and domain information
>cd01556 EPSP_synthase EPSP synthase domain Back     alignment and domain information
>cd01556 EPSP_synthase EPSP synthase domain Back     alignment and domain information
>PRK09369 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated Back     alignment and domain information
>PRK11861 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional Back     alignment and domain information
>PRK02427 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional Back     alignment and domain information
>COG0128 AroA 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism] Back     alignment and domain information
>PRK14806 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional Back     alignment and domain information
>TIGR01356 aroA 3-phosphoshikimate 1-carboxyvinyltransferase Back     alignment and domain information
>PRK14806 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional Back     alignment and domain information
>PLN02338 3-phosphoshikimate 1-carboxyvinyltransferase Back     alignment and domain information
>TIGR01356 aroA 3-phosphoshikimate 1-carboxyvinyltransferase Back     alignment and domain information
>cd01554 EPT-like Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase Back     alignment and domain information
>cd01554 EPT-like Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase Back     alignment and domain information
>cd01555 UdpNAET UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall 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 ?
Query378
3pqv_A365 Cyclase Homolog Length = 365 4e-59
3kgd_A358 Crystal Structure Of E. Coli Rna 3' Cyclase Length 6e-14
1qmh_A347 Crystal Structure Of Rna 3'-Terminal Phosphate Cycl 6e-14
3tut_A358 Crystal Structure Of Rtca.Atp Binary Complex Length 7e-14
1qmi_A347 Crystal Structure Of Rna 3'-Terminal Phosphate Cycl 2e-13
>pdb|3PQV|A Chain A, Cyclase Homolog Length = 365 Back     alignment and structure 
Iteration: 1

 Score =  224 bits (572), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 136/385 (35%), Positives = 214/385 (55%), Gaps = 28/385 (7%)
Query: 1   MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICD 60
           M   + Y   +GS++ R R+V++TL+   + I+ IR+DD  PGL+ +E+S LRL+E + +
Sbjct: 2   MSSSSRYVTFEGSRNFRLRVVMATLSGKAIKIEKIRSDDLNPGLKDYEVSFLRLMEAVTN 61
Query: 61  DCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRG 120
              +EI+ TGT + ++PGI+ GG +  H C  S+ +GYF EP++ +  F+KK  SI  RG
Sbjct: 62  GSSIEISYTGTTVIFRPGIITGG-SYTHQCPNSKPVGYFAEPMLYLAPFSKKKFSILFRG 120
Query: 121 ITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMA 180
           IT+   D  +D  +   +P++++FGV      L    RGSPP GGGEV L   +VD L+A
Sbjct: 121 ITSSHNDAGIDAIKWGLMPIMEKFGVRE--CALHTLKRGSPPLGGGEVHL---VVDSLIA 175
Query: 181 ----VRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQA 236
               +  LD+ M+  IRGVS+STRVS    N MI  A+ +      +V+I  D   G  +
Sbjct: 176 QPITMHALDKTMISSIRGVSYSTRVSPSLVNRMIDGAKKVLKSASCEVNITADVWRGENS 235
Query: 237 GKSPGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLE 296
           GKSPG+G++LVAE   G  I      S A G+  ++          P+++G  +A  LLE
Sbjct: 236 GKSPGWGLTLVAENKQGWRI-----FSEAIGDAGDV----------PEDIGASVAYHLLE 280
Query: 297 EIAKGGVVDSTHQGLLFLLCALSEPDVSKVRVGK--LSPYGIEMLRNIFDFLDIRFDIMP 354
           EI+K GVV      L  L   + + D+ ++R+ K  +    + +LR+I         + P
Sbjct: 281 EISKSGVVGRNQLPLTILYMIIGKEDIGRLRITKDQIDERFVWLLRDIKKVFGTEILLKP 340
Query: 355 -DPSTGTVILRCVGCGYKNLSRKLS 378
            D +T  +I    G G+ N ++K++
Sbjct: 341 VDDNTTDLIATIKGIGFTNTNKKIA 365
>pdb|3KGD|A Chain A, Crystal Structure Of E. Coli Rna 3' Cyclase Length = 358 Back     alignment and structure
>pdb|1QMH|A Chain A, Crystal Structure Of Rna 3'-Terminal Phosphate Cyclase, An Ubiquitous Enzyme With Unusual Topology Length = 347 Back     alignment and structure
>pdb|3TUT|A Chain A, Crystal Structure Of Rtca.Atp Binary Complex Length = 358 Back     alignment and structure
>pdb|1QMI|A Chain A, Crystal Structure Of Rna 3'-Terminal Phosphate Cyclase, An Ubiquitous Enzyme With Unusual Topology Length = 347 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 ?
Query378
3pqv_A365 RCL1 protein; RTC-like, cyclase-like, modular, alp 1e-126
3tut_A358 RNA 3'-terminal phosphate cyclase; cyclase family, 2e-99
>3pqv_A RCL1 protein; RTC-like, cyclase-like, modular, alpha-beta, anion pocket, R biogenesis, unknown function; HET: TAR; 2.61A {Kluyveromyces lactis} Length = 365 Back     alignment and structure
 Score =  366 bits (941), Expect = e-126
 Identities = 130/382 (34%), Positives = 212/382 (55%), Gaps = 22/382 (5%)

Query: 1   MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICD 60
           M   + Y   +GS++ R R+V++TL+   + I+ IR+DD  PGL+ +E+S LRL+E + +
Sbjct: 2   MSSSSRYVTFEGSRNFRLRVVMATLSGKAIKIEKIRSDDLNPGLKDYEVSFLRLMEAVTN 61

Query: 61  DCVVEINETGTELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRG 120
              +EI+ TGT + ++PGI+ GG +  H C  S+ +GYF EP++ +  F+KK  SI  RG
Sbjct: 62  GSSIEISYTGTTVIFRPGIITGG-SYTHQCPNSKPVGYFAEPMLYLAPFSKKKFSILFRG 120

Query: 121 ITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTI-PIVDRLM 179
           IT+   D  +D  +   +P++++FGV      L    RGSPP GGGEV L +  ++ + +
Sbjct: 121 ITSSHNDAGIDAIKWGLMPIMEKFGVRE--CALHTLKRGSPPLGGGEVHLVVDSLIAQPI 178

Query: 180 AVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKS 239
            +  LD+ M+  IRGVS+STRVS    N MI  A+ +      +V+I  D   G  +GKS
Sbjct: 179 TMHALDKTMISSIRGVSYSTRVSPSLVNRMIDGAKKVLKSASCEVNITADVWRGENSGKS 238

Query: 240 PGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIA 299
           PG+G++LVAE   G  I  +     A G+  +           P+++G  +A  LLEEI+
Sbjct: 239 PGWGLTLVAENKQGWRIFSE-----AIGDAGD----------VPEDIGASVAYHLLEEIS 283

Query: 300 KGGVVDSTHQGLLFLLCALSEPDVSKVRV--GKLSPYGIEMLRNIFDFLDIRFDIMP-DP 356
           K GVV      L  L   + + D+ ++R+   ++    + +LR+I         + P D 
Sbjct: 284 KSGVVGRNQLPLTILYMIIGKEDIGRLRITKDQIDERFVWLLRDIKKVFGTEILLKPVDD 343

Query: 357 STGTVILRCVGCGYKNLSRKLS 378
           +T  +I    G G+ N ++K++
Sbjct: 344 NTTDLIATIKGIGFTNTNKKIA 365
>3tut_A RNA 3'-terminal phosphate cyclase; cyclase family, cyclization of RNA 3'-phosphate ENDS, transf; HET: ATP; 1.58A {Escherichia coli} PDB: 3tux_A* 3tv1_A* 3tw3_A* 3kgd_A* 1qmh_A* 1qmi_A Length = 358 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query378
3pqv_A365 RCL1 protein; RTC-like, cyclase-like, modular, alp 100.0
3tut_A358 RNA 3'-terminal phosphate cyclase; cyclase family, 100.0
2pqc_A445 3-phosphoshikimate 1-carboxyvinyltransferase; insi 91.83
3rmt_A455 3-phosphoshikimate 1-carboxyvinyltransferase 1; st 91.11
1rf6_A427 5-enolpyruvylshikimate-3-phosphate synthase; shiki 90.53
3nvs_A450 3-phosphoshikimate 1-carboxyvinyltransferase; stru 90.33
3slh_A441 3-phosphoshikimate 1-carboxyvinyltransferase; stru 89.39
3rmt_A455 3-phosphoshikimate 1-carboxyvinyltransferase 1; st 88.94
3r38_A454 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; 88.37
2yvw_A425 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; 87.27
1ejd_A419 MURA, EPT, UDP-N-acetylglucosamine enolpyruvyltran 87.25
1rf6_A427 5-enolpyruvylshikimate-3-phosphate synthase; shiki 86.57
2o0b_A450 3-phosphoshikimate 1-carboxyvinyltransferase; shik 86.09
2pqc_A445 3-phosphoshikimate 1-carboxyvinyltransferase; insi 85.3
3slh_A441 3-phosphoshikimate 1-carboxyvinyltransferase; stru 85.24
3nvs_A450 3-phosphoshikimate 1-carboxyvinyltransferase; stru 85.15
2o0b_A450 3-phosphoshikimate 1-carboxyvinyltransferase; shik 82.21
>3pqv_A RCL1 protein; RTC-like, cyclase-like, modular, alpha-beta, anion pocket, R biogenesis, unknown function; HET: TAR; 2.61A {Kluyveromyces lactis} Back     alignment and structure
Probab=100.00  E-value=2.4e-109  Score=820.27  Aligned_cols=360  Identities=35%  Similarity=0.626  Sum_probs=335.9

Q ss_pred             CCCCcceEEEeChHHHHHHHHHHhhcCCcEEEeEeeCCCCCCCChHHHHHHHHHHHHHccceeeeeeccceEEEEeCCcc
Q 017072            1 MGKKTSYKRLKGSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIV   80 (378)
Q Consensus         1 ~~~~~~~i~~dG~q~lR~alaLS~ltgkpi~I~nIR~~r~~PGL~~qhl~~l~ll~~l~~g~~~~~~~~gt~l~F~Pg~i   80 (378)
                      |+..+++++|+|||+||+||+||+||||||+|+|||++|+||||++||+++|+|++++|||++++++++||+|+|.||.+
T Consensus         2 ~~~~~~~~~f~GgQilR~alaLS~ltgkpvrI~nIRa~r~~PGL~~qhls~l~ll~~itng~v~g~~~gst~l~F~Pg~i   81 (365)
T 3pqv_A            2 MSSSSRYVTFEGSRNFRLRVVMATLSGKAIKIEKIRSDDLNPGLKDYEVSFLRLMEAVTNGSSIEISYTGTTVIFRPGII   81 (365)
T ss_dssp             ----CCCEEEESSTTHHHHHHHHHHHCCCEEEESSSTTSSSCSCCHHHHHHHHHHHHHEESCEEEECTTSSCEEEECCEE
T ss_pred             CCCCCCeEEEeChhHHHHHHHHHHhhCCCEEEEEecCCCCCCCccHHHHHHHHHHHHHhCceEeeeecCCcEEEEECCcc
Confidence            66556799999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCceEEEecCCCchhHHHHHHHHHhhhcCCCCeEEEEEeccCCCCCCcHHHHHHHHHHHHhhcCCCCCceEEEEEeeCC
Q 017072           81 MGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGS  160 (378)
Q Consensus        81 ~~g~~~~~d~~tagSi~l~lq~lLp~l~f~~~~~~ltl~GgT~~~~~Ps~Dy~~~v~~p~l~~~G~~~~~~~~~i~krG~  160 (378)
                      ++|+ |+|||+|||||+|+||++||+++|++.|++|+|+||||++||||+||+++||+|+|++||++  ++++++.||||
T Consensus        82 ~gG~-~~~d~~tagSi~l~l~~lL~~a~f~~~p~~l~l~GgTn~~~sPsvDy~~~v~lP~l~~fG~~--~~~l~i~rRG~  158 (365)
T 3pqv_A           82 TGGS-YTHQCPNSKPVGYFAEPMLYLAPFSKKKFSILFRGITSSHNDAGIDAIKWGLMPIMEKFGVR--ECALHTLKRGS  158 (365)
T ss_dssp             CCEE-EEEECCTTSCHHHHHGGGGGTGGGSSSCEEEEEEECCCCSSSCCHHHHHHTTHHHHHHTTCC--SCEEEEEECCC
T ss_pred             cCCe-EEEECCCCcchHHHHHHHHHHHhcCCCcEEEEEEcccCCCCCCCHHHHHHHHHHHHHHcCCC--eEEEEEEecCC
Confidence            9999 99999999999999999999999999999999999999999999999999999999999995  69999999999


Q ss_pred             CCCCCcEEEEEEecC-CCccceEeeecCceeEEEEEEEecccchhHHHHHHHHHHHHhhhcCCceeEEeeccCCCCCCCC
Q 017072          161 PPDGGGEVILTIPIV-DRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKS  239 (378)
Q Consensus       161 ~P~GgGeV~~~~~p~-~~l~~i~l~~~g~i~~Irg~~~~~~l~~~ia~r~~~~a~~~L~~~~~~v~I~~d~~~~~~~~~~  239 (378)
                      ||+|||||+++|.|+ ++++|++|+++|++++|||++|++++|+++++||+++|++.|+++.+|++|++|+.++.+++.+
T Consensus       159 ~P~GGGeV~~~v~p~~~~l~~i~l~~~G~i~~IrG~a~~~~v~~~~a~R~~~~a~~~L~~~~~dv~I~~d~~~~~~~~~s  238 (365)
T 3pqv_A          159 PPLGGGEVHLVVDSLIAQPITMHALDKTMISSIRGVSYSTRVSPSLVNRMIDGAKKVLKSASCEVNITADVWRGENSGKS  238 (365)
T ss_dssp             TTTCCEEEEEEECCCCSSCCCCEECSCCCCCEEEEEEEEESSCTHHHHHHHHHHHHHSTTCSSEECCEEEEECSGGGCSS
T ss_pred             CCCCCeEEEEEEeCccccCCcceeecCCceEEEEEEEEecCCCHHHHHHHHHHHHHHHhhcCCCccEEEeeccccccCCC
Confidence            999999999999875 6799999999999999999999999999999999999999999999999999998887777899


Q ss_pred             CceEEEEEEEecCceEEeEecccccCCCCcchhhhhhccCCCChhhHHHHHHHHHHHHHHcCCCCCcCChhHHHHHHhhc
Q 017072          240 PGYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALS  319 (378)
Q Consensus       240 ~G~~i~L~aet~~g~~~~~d~~~~~g~~~~~~~~~~~~~~~~~aE~vg~~aa~~Ll~~i~~g~~vD~~~qdqlli~mALa  319 (378)
                      ||+||+|||||++||+|++|+++++|               ++||+||++||++|++||++|||||+||||||++|||||
T Consensus       239 pG~gi~L~Aet~~g~~~~~~~lg~~g---------------~~aE~vg~~aa~~Ll~~i~~gg~VD~~lqdqli~~mALa  303 (365)
T 3pqv_A          239 PGWGLTLVAENKQGWRIFSEAIGDAG---------------DVPEDIGASVAYHLLEEISKSGVVGRNQLPLTILYMIIG  303 (365)
T ss_dssp             CEEEEEEEEECTTSCEEEEEEEECTT---------------CCHHHHHHHHHHHHHHHHHTCSSSCGGGHHHHHHHHHTS
T ss_pred             CceEEEEEEEECCCEEEEEehhccCC---------------CCHHHHHHHHHHHHHHHHHcCCccchhhHHHHHHHHHhC
Confidence            99999999999999999999999887               899999999999999999999999999999999999999


Q ss_pred             CCCcceEEec--CCCHHHHHHHHHHHhhcCcEEEEeeCC-CCCeEEEEEEeeeccccccccC
Q 017072          320 EPDVSKVRVG--KLSPYGIEMLRNIFDFLDIRFDIMPDP-STGTVILRCVGCGYKNLSRKLS  378 (378)
Q Consensus       320 ~~~~S~i~~g--~lT~h~~t~l~v~~~f~~v~f~i~~~~-~~~~~~i~c~G~G~~n~~~~~~  378 (378)
                      ++++|++++|  .+|++++..++.+++|||++|++++.+ ++++++++|+|+||+|.+||++
T Consensus       304 ~~~vs~i~~g~~~lt~~~i~~lr~l~~~fgv~f~i~~~~~~~~~~ii~c~G~G~~N~~~~~~  365 (365)
T 3pqv_A          304 KEDIGRLRITKDQIDERFVWLLRDIKKVFGTEILLKPVDDNTTDLIATIKGIGFTNTNKKIA  365 (365)
T ss_dssp             SSSEEEEEECGGGCSHHHHHHHHHHHHHHCCCCEEEECSSSSSCEEEEEECCCC--------
T ss_pred             CCCcceEEeCCCCCCHHHHHHHHHHHHhhCcEEEEEecCCCCCeEEEEEEEEeccccccccC
Confidence            9889999999  479999999999999999999998753 3578999999999999999975
>3tut_A RNA 3'-terminal phosphate cyclase; cyclase family, cyclization of RNA 3'-phosphate ENDS, transf; HET: ATP; 1.58A {Escherichia coli} PDB: 3tux_A* 3tv1_A* 3tw3_A* 3kgd_A* 1qmh_A* 1qmi_A Back     alignment and structure
>2pqc_A 3-phosphoshikimate 1-carboxyvinyltransferase; inside-OUT alpha/beta barrel; HET: RC1; 1.60A {Agrobacterium SP} PDB: 2pqb_A* 2gg6_A* 2gg4_A* 2gga_A* 2ggd_A* 2pqd_A* Back     alignment and structure
>3rmt_A 3-phosphoshikimate 1-carboxyvinyltransferase 1; structural genomics, protein structure initiative; 2.80A {Bacillus halodurans} Back     alignment and structure
>1rf6_A 5-enolpyruvylshikimate-3-phosphate synthase; shikimate pathway, EPSP synthase, glyphosate, PEP, transferase; HET: GPJ S3P; 1.90A {Streptococcus pneumoniae} SCOP: d.68.2.2 PDB: 1rf5_A 1rf4_A* Back     alignment and structure
>3nvs_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics, center for structural genomics of infec diseases, csgid; HET: S3P SKM GPJ EPE; 1.02A {Vibrio cholerae} PDB: 1g6s_A* 1g6t_A* 1x8r_A* 1x8t_A* 2aa9_A* 2aay_A* 2pq9_A* 1eps_A 1mi4_A* 3fjz_A* 3fjx_A* 2qfs_A* 2qft_A* 2qfq_A* 2qfu_A* 3fk0_A* 3fk1_A* 1q36_A* 3ti2_A* 1p88_A ... Back     alignment and structure
>3slh_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics, center for structural genomics of infec diseases, csgid; HET: S3P GPJ SKM PGE 1PE PG4; 1.70A {Coxiella burnetii} PDB: 3roi_A* 4egr_A* 4gfp_A 3tr1_A Back     alignment and structure
>3rmt_A 3-phosphoshikimate 1-carboxyvinyltransferase 1; structural genomics, protein structure initiative; 2.80A {Bacillus halodurans} Back     alignment and structure
>3r38_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; biosynthesis and degradation of murein sacculus and peptidog infectious diseases; 2.23A {Listeria monocytogenes} PDB: 3sg1_A* Back     alignment and structure
>2yvw_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; peptidoglycan, structu genomics, NPPSFA; HET: EPU; 1.81A {Aquifex aeolicus} PDB: 3swg_A* Back     alignment and structure
>1ejd_A MURA, EPT, UDP-N-acetylglucosamine enolpyruvyltransferase; inside-OUT alpha/beta barrel; 1.55A {Enterobacter cloacae} SCOP: d.68.2.2 PDB: 1ejc_A 1eyn_A* 1ybg_A* 3kqa_A* 3lth_A* 3spb_A 3swq_A* 3upk_A* 1naw_A 1dlg_A 1ryw_A* 1q3g_A* 3su9_A* 3swi_A* 3v4t_A* 3v5v_A* 3swa_A* 1uae_A* 3kqj_A* 3kr6_A* ... Back     alignment and structure
>1rf6_A 5-enolpyruvylshikimate-3-phosphate synthase; shikimate pathway, EPSP synthase, glyphosate, PEP, transferase; HET: GPJ S3P; 1.90A {Streptococcus pneumoniae} SCOP: d.68.2.2 PDB: 1rf5_A 1rf4_A* Back     alignment and structure
>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway, EPSP synthase, structural genomics; HET: S3P; 1.15A {Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A* 2o0x_A* 2o0z_A* 2o15_A 2bjb_A Back     alignment and structure
>2pqc_A 3-phosphoshikimate 1-carboxyvinyltransferase; inside-OUT alpha/beta barrel; HET: RC1; 1.60A {Agrobacterium SP} PDB: 2pqb_A* 2gg6_A* 2gg4_A* 2gga_A* 2ggd_A* 2pqd_A* Back     alignment and structure
>3slh_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics, center for structural genomics of infec diseases, csgid; HET: S3P GPJ SKM PGE 1PE PG4; 1.70A {Coxiella burnetii} PDB: 3roi_A* 4egr_A* 4gfp_A 3tr1_A Back     alignment and structure
>3nvs_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics, center for structural genomics of infec diseases, csgid; HET: S3P SKM GPJ EPE; 1.02A {Vibrio cholerae} PDB: 1g6s_A* 1g6t_A* 1x8r_A* 1x8t_A* 2aa9_A* 2aay_A* 2pq9_A* 1eps_A 1mi4_A* 3fjz_A* 3fjx_A* 2qfs_A* 2qft_A* 2qfq_A* 2qfu_A* 3fk0_A* 3fk1_A* 1q36_A* 3ti2_A* 1p88_A ... Back     alignment and structure
>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway, EPSP synthase, structural genomics; HET: S3P; 1.15A {Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A* 2o0x_A* 2o0z_A* 2o15_A 2bjb_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 378
d1qmha2239 d.68.2.1 (A:5-184,A:280-338) RNA 3'-terminal phosp 2e-66
d1qmha195 c.47.2.1 (A:185-279) RNA 3'-terminal phosphate cyc 3e-12
>d1qmha2 d.68.2.1 (A:5-184,A:280-338) RNA 3'-terminal phosphate cyclase, RPTC {Escherichia coli [TaxId: 562]} Length = 239 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: EPT/RTPC-like
family: RNA 3'-terminal phosphate cyclase, RPTC
domain: RNA 3'-terminal phosphate cyclase, RPTC
species: Escherichia coli [TaxId: 562]

 Score =  208 bits (531), Expect = 2e-66
 Identities = 55/227 (24%), Positives = 81/227 (35%), Gaps = 10/227 (4%)

Query: 12  GSQSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGT 71
           G Q LR  L LS +   P  I  IRA    PGL    ++ ++    IC   V        
Sbjct: 12  GGQILRSALSLSMITGQPFTITSIRAGRAKPGLLRQHLTAVKAATEICGATVEGAELGSQ 71

Query: 72  ELEYKPGIVMGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVD 131
            L ++PG V GG +     G + S    L+ ++    FA  P  + + G T++P  P  D
Sbjct: 72  RLLFRPGTVRGG-DYRFAIGSAGSCTLVLQTVLPALWFADGPSRVEVSGGTDNPSAPPAD 130

Query: 132 TFRSTTLPLLKRFGVPSEGLELKIESRGSPPDGGGEVILTIPIVDRLMAVRWLDEGMVKR 191
             R    PLL + G+     +  +   G  P GGG V   +  V     ++    G    
Sbjct: 131 FIRRVLEPLLAKIGIH---QQTTLLRHGFYPAGGGVVATEVSPVASFNTLQLGAVGEYLA 187

Query: 192 IRGVSFST---RVSSQFENSMIHA--ARGIFNRLLPDVHIFTDHRAG 233
            + V              +   H      +  R LP V        G
Sbjct: 188 DQLVLPMALAGAGEFTVAHPSCHLLTNIAVVERFLP-VRFSLIETDG 233
>d1qmha1 c.47.2.1 (A:185-279) RNA 3'-terminal phosphate cyclase, RPTC, insert domain {Escherichia coli [TaxId: 562]} Length = 95 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 ?
Query378
d1qmha2239 RNA 3'-terminal phosphate cyclase, RPTC {Escherich 100.0
d1qmha195 RNA 3'-terminal phosphate cyclase, RPTC, insert do 99.75
d1p88a_216 5-enol-pyruvyl shikimate-3-phosphate (EPSP) syntha 91.85
d1rf6a_427 5-enol-pyruvyl shikimate-3-phosphate (EPSP) syntha 83.92
>d1qmha2 d.68.2.1 (A:5-184,A:280-338) RNA 3'-terminal phosphate cyclase, RPTC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: EPT/RTPC-like
family: RNA 3'-terminal phosphate cyclase, RPTC
domain: RNA 3'-terminal phosphate cyclase, RPTC
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=4.9e-70  Score=508.23  Aligned_cols=225  Identities=26%  Similarity=0.400  Sum_probs=216.5

Q ss_pred             eEEEeCh------HHHHHHHHHHhhcCCcEEEeEeeCCCCCCCChHHHHHHHHHHHHHccceeeeeeccceEEEEeCCcc
Q 017072            7 YKRLKGS------QSLRQRLVLSTLASTPVLIDDIRADDTMPGLRPHEISLLRLLERICDDCVVEINETGTELEYKPGIV   80 (378)
Q Consensus         7 ~i~~dG~------q~lR~alaLS~ltgkpi~I~nIR~~r~~PGL~~qhl~~l~ll~~l~~g~~~~~~~~gt~l~F~Pg~i   80 (378)
                      ||+|||+      |+||+|+|||+||||||+|+|||++|++|||++||+++|+|++++|+|++.+++.+||+|+|+||.+
T Consensus         1 mi~iDGs~~EGGgqilR~~laLS~ltgkpv~I~nIR~~r~~PGL~~qh~~~l~l~~~i~~~~~~g~~~gst~l~f~Pg~i   80 (239)
T d1qmha2           1 MIALDGAQGEGGGQILRSALSLSMITGQPFTITSIRAGRAKPGLLRQHLTAVKAATEICGATVEGAELGSQRLLFRPGTV   80 (239)
T ss_dssp             CEEEETTSTTCSHHHHHHHHHHHHHHCCCEEEESTTTTBSSCSCCHHHHHHHHHHHHHHTCEEECCSTTCCCEEEECCCC
T ss_pred             CeEEeCCCCcCchHHHHHHHHHHHHhCCCEEEEEecCCCCCCCchHHHHHHHHHHHHHhCCeEeeeecCcEEEEEECCcc
Confidence            8999986      9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCceEEEecCCCchhHHHHHHHHHhhhcCCCCeEEEEEeccCCCCCCcHHHHHHHHHHHHhhcCCCCCceEEEEEeeCC
Q 017072           81 MGGRNLVHDCGVSRSIGYFLEPLILVGLFAKKPISIRLRGITNDPKDPSVDTFRSTTLPLLKRFGVPSEGLELKIESRGS  160 (378)
Q Consensus        81 ~~g~~~~~d~~tagSi~l~lq~lLp~l~f~~~~~~ltl~GgT~~~~~Ps~Dy~~~v~~p~l~~~G~~~~~~~~~i~krG~  160 (378)
                      ++|+ |+|||+|||||+||||++||+++|++.|++|+|+||||++||||+||+++||+|+|++||++   +++++.||||
T Consensus        81 ~~g~-~~~~~~tagsi~l~lq~llp~~~f~~~~~~l~l~GgT~~~~~psvd~~~~v~lp~l~~~G~~---~~~~i~~rG~  156 (239)
T d1qmha2          81 RGGD-YRFAIGSAGSCTLVLQTVLPALWFADGPSRVEVSGGTDNPSAPPADFIRRVLEPLLAKIGIH---QQTTLLRHGF  156 (239)
T ss_dssp             CCEE-EEEEEEEEEEHHHHHHHHHHHHTTSSSCEEEEEEEECBBTTBCCTHHHHHTHHHHHHHTTCE---EEEEEEECCB
T ss_pred             cCCe-EEEecCCCcchhHHHHHHHHHHhhCCCCeEEEEEcccCCCCCCCHHHHHHHHHHHHHHcCCC---eEEEEEeccc
Confidence            9999 99999999999999999999999999999999999999999999999999999999999999   9999999999


Q ss_pred             CCCCCcEEEEEEecCCCccceEeeecCceeEEEEEEEecccchhHHHHHHHHHHHHhhhcCCceeEEeeccCCCCCCCCC
Q 017072          161 PPDGGGEVILTIPIVDRLMAVRWLDEGMVKRIRGVSFSTRVSSQFENSMIHAARGIFNRLLPDVHIFTDHRAGPQAGKSP  240 (378)
Q Consensus       161 ~P~GgGeV~~~~~p~~~l~~i~l~~~g~i~~Irg~~~~~~l~~~ia~r~~~~a~~~L~~~~~~v~I~~d~~~~~~~~~~~  240 (378)
                      ||+|||||.++|+|+++++|+++.                                                        
T Consensus       157 ~P~GGG~v~~~~~p~~~l~~i~l~--------------------------------------------------------  180 (239)
T d1qmha2         157 YPAGGGVVATEVSPVASFNTLQLG--------------------------------------------------------  180 (239)
T ss_dssp             TTCCCEEEEEEEECCSCCCCCBCC--------------------------------------------------------
T ss_pred             CCCCCeEEEEEEeccccccceeec--------------------------------------------------------
Confidence            999999999999999999998863                                                        


Q ss_pred             ceEEEEEEEecCceEEeEecccccCCCCcchhhhhhccCCCChhhHHHHHHHHHHHHHHcCCCCCcCChhHHHHHHhhcC
Q 017072          241 GYGISLVAETTSGCFISVDTAVSYARGEVDEIEYDEKRELMPPDNVGEQIASCLLEEIAKGGVVDSTHQGLLFLLCALSE  320 (378)
Q Consensus       241 G~~i~L~aet~~g~~~~~d~~~~~g~~~~~~~~~~~~~~~~~aE~vg~~aa~~Ll~~i~~g~~vD~~~qdqlli~mALa~  320 (378)
                                                                                    .++++++||+++|||+|.
T Consensus       181 --------------------------------------------------------------~~G~~~adq~i~~~alAg  198 (239)
T d1qmha2         181 --------------------------------------------------------------AVGEYLADQLVLPMALAG  198 (239)
T ss_dssp             --------------------------------------------------------------SSCHHHHHHHHHHHHHHT
T ss_pred             --------------------------------------------------------------cCCceeeeeeeeeeheec
Confidence                                                                          133689999999999995


Q ss_pred             CCcceEEecCCCHHHHHHHHHHHhhcCcEEEEeeC
Q 017072          321 PDVSKVRVGKLSPYGIEMLRNIFDFLDIRFDIMPD  355 (378)
Q Consensus       321 ~~~S~i~~g~lT~h~~t~l~v~~~f~~v~f~i~~~  355 (378)
                        .+.+++.+.+.|+.||+|++++|++++|++++.
T Consensus       199 --~~~~svae~~~h~~Tni~Vierflpv~f~i~~~  231 (239)
T d1qmha2         199 --AGEFTVAHPSCHLLTNIAVVERFLPVRFSLIET  231 (239)
T ss_dssp             --CCEEEESSCCHHHHHHHHHHHHHSSCCCEEEEC
T ss_pred             --cCCchHhhhhhhhhHhHHHHHhcCCceEEEEec
Confidence              488999999999999999999999999999875
>d1qmha1 c.47.2.1 (A:185-279) RNA 3'-terminal phosphate cyclase, RPTC, insert domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1p88a_ d.68.2.2 (A:) 5-enol-pyruvyl shikimate-3-phosphate (EPSP) synthase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1rf6a_ d.68.2.2 (A:) 5-enol-pyruvyl shikimate-3-phosphate (EPSP) synthase {Streptococcus pneumoniae [TaxId: 1313]} Back     information, alignment and structure