Citrus Sinensis ID: 021316

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----
MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDLIPSAT
cccccccccccHHHHHHHcccHHHHHccccccccccccccccccccccEEEEEEccccccccccccccccccccEEEEEEccccccHHHHHHHHHHHHcccEEEEccccHHHHHcccccHHHHHHHHHHHcccccccEEEEEccccHHHHHHcccccccccccHHHHHHHHHcccccEEEEEcccccccHHHHcccccccccccccEEEEEccccHHHHHHHHHccccEEEccccccccccccccHHHHHHHcccccccEEEEcccccccccEEEEccccccEEEccccccccccccccccccccccccccccc
cccEEEccccHHHHHHHHcccccccccccccccccccccccccccccEEEEEEEEEccccccEcccccccccccEEEEEEccccccHHHHHHHHHHHHcccEEEEccccEEEEccccccHHHHHHHHHHHcccccccEEEEEccHHHHHHHHHccccccccccHHHHHHHHHcccccEEEEEccccccccEEccccccccccccccEEEEEccccHHHHHHHHHccccEEcccccccccccccccHHHHHHHHcccEEEEEEEccccccccEEEEEccccccEEEEcccccHHHHHHHcccccEccHHHHcccc
magtklcggdtAFLLRSHLHSLEAATrraapfpgrvsslspkpkpsrfRIVAMTvkrspkrlkysaprftkegglmyveadpsgadswklEPVVELLKEgavgvvptDTLYAIVCDLKSHSAIERLRRiknvepskplSILCRSLrdidtyttgfprgdgqgHANIFRAVkhclpgpytfiltaskevpkkcvrygtttakyslrkhvgvripnDAICQAILQKMDAPLISTSVkwlkdnewmvdpvviadtygpegldfvvdggvrvaepstvvdmtgtypkiirqgkgpklywmeeedansTAIEDLIPSAT
magtklcggdTAFLLRSHLHSLEAATrraapfpgrvsslspkpkpsrfrivamtvkrspkrlkysaprftkegglMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERlrriknvepskplsILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFIltaskevpkkCVRYGTTtakyslrkhvgvrIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAepstvvdmtgtypkiirqgkgpklyWMEEEdanstaiedlipsat
MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDLIPSAT
******CGGDTAFLLRSHL*************************************************FTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWM******************
********GDTAFLLRSHLHSLEAAT**********************************************GGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANST**********
MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDLIPSAT
**GTK**GGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDLI****
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPKRLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEEDANSTAIEDLIPSAT
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 ?
Query314 2.2.26 [Sep-21-2011]
P0AFR6206 Uncharacterized protein Y yes no 0.608 0.927 0.314 2e-25
P0AFR4206 Uncharacterized protein Y N/A no 0.608 0.927 0.314 2e-25
P0AFR5206 Uncharacterized protein Y yes no 0.608 0.927 0.314 2e-25
P45103207 Uncharacterized protein H yes no 0.611 0.927 0.309 1e-22
Q0VC80276 YrdC domain-containing pr yes no 0.394 0.449 0.298 7e-09
Q0VTD8182 tRNA threonylcarbamoylade no no 0.522 0.901 0.271 9e-09
Q499R4280 YrdC domain-containing pr yes no 0.592 0.664 0.288 3e-08
A6WHB6188 tRNA threonylcarbamoylade no no 0.566 0.946 0.251 6e-08
A3CYL0188 tRNA threonylcarbamoylade no no 0.566 0.946 0.251 6e-08
Q86U90279 YrdC domain-containing pr yes no 0.554 0.623 0.303 8e-08
>sp|P0AFR6|YCIO_SHIFL Uncharacterized protein YciO OS=Shigella flexneri GN=yciO PE=3 SV=1 Back     alignment and function desciption
 Score =  116 bits (291), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 66/210 (31%), Positives = 116/210 (55%), Gaps = 19/210 (9%)

Query: 82  PSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSIL 141
           P       +   VE++++G V V PTD+ YA+ C ++  +A+ER+ RI+ +      +++
Sbjct: 9   PDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLM 68

Query: 142 CRSLRDIDTYTTGFPRGDGQGHANI-FRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTA 200
           CR L ++ TY+            N+ FR +K+  PG YTFIL  +KEVP++ ++      
Sbjct: 69  CRDLSELSTYSF---------VDNVAFRLMKNNTPGNYTFILKGTKEVPRRLLQ------ 113

Query: 201 KYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDF 260
               RK +G+R+P++ I QA+L+ +  P++STS+          DP  I D    + +D 
Sbjct: 114 --EKRKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQ-VDL 170

Query: 261 VVDGGVRVAEPSTVVDMTGTYPKIIRQGKG 290
           ++ GG    +P+TV+D+T   P ++R+G G
Sbjct: 171 IIHGGYLGQKPTTVIDLTDDTPVVVREGVG 200

Shigella flexneri (taxid: 623)
>sp|P0AFR4|YCIO_ECOLI Uncharacterized protein YciO OS=Escherichia coli (strain K12) GN=yciO PE=1 SV=1 Back     alignment and function description
>sp|P0AFR5|YCIO_ECOL6 Uncharacterized protein YciO OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=yciO PE=3 SV=1 Back     alignment and function description
>sp|P45103|Y1198_HAEIN Uncharacterized protein HI_1198 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=HI_1198 PE=3 SV=1 Back     alignment and function description
>sp|Q0VC80|YRDC_BOVIN YrdC domain-containing protein, mitochondrial OS=Bos taurus GN=YRDC PE=2 SV=1 Back     alignment and function description
>sp|Q0VTD8|RIMN_ALCBS tRNA threonylcarbamoyladenosine biosynthesis protein RimN OS=Alcanivorax borkumensis (strain SK2 / ATCC 700651 / DSM 11573) GN=rimN PE=3 SV=1 Back     alignment and function description
>sp|Q499R4|YRDC_RAT YrdC domain-containing protein, mitochondrial OS=Rattus norvegicus GN=Yrdc PE=2 SV=1 Back     alignment and function description
>sp|A6WHB6|RIMN_SHEB8 tRNA threonylcarbamoyladenosine biosynthesis protein RimN OS=Shewanella baltica (strain OS185) GN=rimN PE=3 SV=1 Back     alignment and function description
>sp|A3CYL0|RIMN_SHEB5 tRNA threonylcarbamoyladenosine biosynthesis protein RimN OS=Shewanella baltica (strain OS155 / ATCC BAA-1091) GN=rimN PE=3 SV=1 Back     alignment and function description
>sp|Q86U90|YRDC_HUMAN YrdC domain-containing protein, mitochondrial OS=Homo sapiens GN=YRDC PE=1 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 ?
Query314
118489827313 unknown [Populus trichocarpa x Populus d 0.990 0.993 0.753 1e-133
224055737322 predicted protein [Populus trichocarpa] 0.990 0.965 0.735 1e-132
255536893326 sua5, putative [Ricinus communis] gi|223 0.990 0.953 0.702 1e-121
225451447306 PREDICTED: uncharacterized protein HI_11 0.853 0.875 0.789 1e-120
22330801307 putative translation factor [Arabidopsis 0.977 1.0 0.684 1e-119
297832740305 yrdC family protein [Arabidopsis lyrata 0.971 1.0 0.671 1e-116
356571525308 PREDICTED: uncharacterized protein HI_11 0.878 0.896 0.722 1e-116
449455846309 PREDICTED: uncharacterized protein HI_11 0.869 0.883 0.730 1e-114
147841978329 hypothetical protein VITISV_012595 [Viti 0.808 0.772 0.707 1e-105
357142058348 PREDICTED: uncharacterized protein yciO- 0.907 0.818 0.608 6e-98
>gi|118489827|gb|ABK96713.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 238/316 (75%), Positives = 273/316 (86%), Gaps = 5/316 (1%)

Query: 1   MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPK 60
           MA TKL G      L S L SL    R  APFP  VS  +PKP   R R+++M +KRSPK
Sbjct: 1   MAETKLYGYKLTPSL-SSLPSLTTLRRHVAPFPSLVSFNTPKP--PRLRVLSMAIKRSPK 57

Query: 61  RLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSH 120
           RLKYSAPRFTKE GL+YVEAD  G+D+WKLEPV+ELLK+GAVGV+PTDT+YAIVCDLKS+
Sbjct: 58  RLKYSAPRFTKEDGLLYVEADELGSDTWKLEPVIELLKQGAVGVIPTDTVYAIVCDLKSN 117

Query: 121 SAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTF 180
           SAIERLRRIKN+EPSKPLSILC SLRDIDTYTTGFPRGDGQGHA+IFRAVKHCLPGPYTF
Sbjct: 118 SAIERLRRIKNIEPSKPLSILCHSLRDIDTYTTGFPRGDGQGHADIFRAVKHCLPGPYTF 177

Query: 181 ILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDN 240
           ILTASKE+PK+CVR+GTTTAKY+ RK+VG+R+P+DAICQAIL+KMDAPLISTSV+  K+N
Sbjct: 178 ILTASKELPKQCVRFGTTTAKYASRKNVGIRMPDDAICQAILEKMDAPLISTSVRSPKEN 237

Query: 241 EWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEED 300
           EWM+DPVVIAD YG EGLDFVV+GG+RVA+PSTVVDMTG+ PKIIRQGKGPKL+WM  ED
Sbjct: 238 EWMIDPVVIADIYGLEGLDFVVNGGIRVADPSTVVDMTGSSPKIIRQGKGPKLHWMVAED 297

Query: 301 ANSTA--IEDLIPSAT 314
            + +A  +EDLI SAT
Sbjct: 298 DDESAFHVEDLIHSAT 313

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224055737|ref|XP_002298628.1| predicted protein [Populus trichocarpa] gi|222845886|gb|EEE83433.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255536893|ref|XP_002509513.1| sua5, putative [Ricinus communis] gi|223549412|gb|EEF50900.1| sua5, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|225451447|ref|XP_002273946.1| PREDICTED: uncharacterized protein HI_1198 [Vitis vinifera] gi|296082345|emb|CBI21350.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|22330801|ref|NP_566156.2| putative translation factor [Arabidopsis thaliana] gi|6091731|gb|AAF03443.1|AC010797_19 hypothetical protein [Arabidopsis thaliana] gi|19310491|gb|AAL84979.1| At3g1920/F28J7.25 [Arabidopsis thaliana] gi|23505865|gb|AAN28792.1| At3g1920/F28J7.25 [Arabidopsis thaliana] gi|332640214|gb|AEE73735.1| putative translation factor [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297832740|ref|XP_002884252.1| yrdC family protein [Arabidopsis lyrata subsp. lyrata] gi|297330092|gb|EFH60511.1| yrdC family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|356571525|ref|XP_003553927.1| PREDICTED: uncharacterized protein HI_1198-like [Glycine max] Back     alignment and taxonomy information
>gi|449455846|ref|XP_004145661.1| PREDICTED: uncharacterized protein HI_1198-like [Cucumis sativus] gi|449502016|ref|XP_004161520.1| PREDICTED: uncharacterized protein HI_1198-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|147841978|emb|CAN72004.1| hypothetical protein VITISV_012595 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357142058|ref|XP_003572445.1| PREDICTED: uncharacterized protein yciO-like [Brachypodium distachyon] 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 ?
Query314
TAIR|locus:2078668307 AT3G01920 [Arabidopsis thalian 0.977 1.0 0.684 1.8e-112
UNIPROTKB|Q8ECV7206 yciO "RNA binding protein YciO 0.410 0.626 0.379 3.9e-21
TIGR_CMR|SO_3016206 SO_3016 "Sua5/YciO/YrdC/YwlC f 0.410 0.626 0.379 3.9e-21
UNIPROTKB|Q885M0209 PSPTO_1811 "Sua5/YciO/YrdC/Ywl 0.490 0.736 0.311 8.3e-19
UNIPROTKB|Q605R9207 MCA2209 "Sua5/YciO/YrdC/YwlC f 0.538 0.816 0.281 1.7e-18
UNIPROTKB|Q47YC6206 CPS_3520 "Sua5/YciO/YrdC/YwlC 0.496 0.757 0.329 1.7e-18
TIGR_CMR|CPS_3520206 CPS_3520 "Sua5/YciO/YrdC/YwlC 0.496 0.757 0.329 1.7e-18
UNIPROTKB|Q83D35204 CBU_0909 "Sua5/YciO/YrdC/YwlC 0.445 0.686 0.316 4.6e-18
TIGR_CMR|CBU_0909204 CBU_0909 "Sua5/YciO/YrdC/YwlC 0.445 0.686 0.316 4.6e-18
UNIPROTKB|Q9KSS8206 VC_1178 "Putative uncharacteri 0.490 0.747 0.311 7.5e-18
TAIR|locus:2078668 AT3G01920 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1110 (395.8 bits), Expect = 1.8e-112, P = 1.8e-112
 Identities = 215/314 (68%), Positives = 251/314 (79%)

Query:     1 MAGTKLCGGDTAFLLRSHLHSLEAATRRAAPFPGRVSSLSPKPKPSRFRIVAMTVKRSPK 60
             MA  KL GG  A  +R  L       RR +  P   +SLSP+    R+ IVA+  KRSPK
Sbjct:     1 MAVAKLHGGGMA-AMRLLLLPSPMTHRRPSTLPS-TASLSPR----RY-IVALAAKRSPK 53

Query:    61 RLKYSAPRFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSH 120
             RLKYS PRFTKEG L+Y+E DP G DSWKL+PV++LLK+GAVGV+PTDT+YAI CD K+H
Sbjct:    54 RLKYSTPRFTKEGELVYIEVDPCGVDSWKLQPVIDLLKQGAVGVIPTDTVYAIACDCKNH 113

Query:   121 SAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTF 180
             SA+ERLRRIK +E SKPLSILCRSLRDIDT+T GFPRGDG GHAN+FRAVK CLPGPYTF
Sbjct:   114 SAVERLRRIKKIESSKPLSILCRSLRDIDTFTMGFPRGDGHGHANVFRAVKQCLPGPYTF 173

Query:   181 ILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDN 240
             ILTASKE+PK+CV YGTT+ KY+ RK+VGVRI +DA+CQAILQ+MDAPLI TSVK  K+N
Sbjct:   174 ILTASKELPKQCVGYGTTSVKYASRKNVGVRISDDALCQAILQQMDAPLICTSVKGPKEN 233

Query:   241 EWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWMEEED 300
             EWM+DP  I D YGPEGLDFVVDGG+RVAEPST+VDMTG YPK+IR+GKGP L WM  ED
Sbjct:   234 EWMIDPTAIGDIYGPEGLDFVVDGGIRVAEPSTIVDMTGPYPKVIREGKGPILPWMVVED 293

Query:   301 ANSTAIEDLIPSAT 314
               S+  +DL+ S T
Sbjct:   294 DESSLRQDLMASGT 307
GO:0005737 "cytoplasm" evidence=ISM
GO:0008150 "biological_process" evidence=ND
UNIPROTKB|Q8ECV7 yciO "RNA binding protein YciO" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3016 SO_3016 "Sua5/YciO/YrdC/YwlC family protein" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
UNIPROTKB|Q885M0 PSPTO_1811 "Sua5/YciO/YrdC/YwlC family protein" [Pseudomonas syringae pv. tomato str. DC3000 (taxid:223283)] Back     alignment and assigned GO terms
UNIPROTKB|Q605R9 MCA2209 "Sua5/YciO/YrdC/YwlC family protein" [Methylococcus capsulatus str. Bath (taxid:243233)] Back     alignment and assigned GO terms
UNIPROTKB|Q47YC6 CPS_3520 "Sua5/YciO/YrdC/YwlC family protein" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_3520 CPS_3520 "Sua5/YciO/YrdC/YwlC family protein" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q83D35 CBU_0909 "Sua5/YciO/YrdC/YwlC family protein" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_0909 CBU_0909 "Sua5/YciO/YrdC/YwlC family protein" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KSS8 VC_1178 "Putative uncharacterized protein" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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

Fail to connect to STRING server

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 ?
Query314
pfam01300178 pfam01300, Sua5_yciO_yrdC, Telomere recombination 1e-50
COG0009211 COG0009, SUA5, Putative translation factor (SUA5) 1e-44
TIGR00057201 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adeno 2e-36
PRK11630206 PRK11630, PRK11630, hypothetical protein; Provisio 4e-36
PRK10634190 PRK10634, PRK10634, tRNA(ANN) t(6)A37 threonylcarb 1e-06
>gnl|CDD|216422 pfam01300, Sua5_yciO_yrdC, Telomere recombination Back     alignment and domain information 
 Score =  165 bits (420), Expect = 1e-50
 Identities = 62/195 (31%), Positives = 93/195 (47%), Gaps = 18/195 (9%)

Query: 95  ELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTG 154
           E L++G +   PTDT+Y + CD  +  A+ERLR IK     KPL+++   L  +  Y   
Sbjct: 1   EALRQGGIVAYPTDTVYGLGCDATNEEAVERLREIKGRPRDKPLAVMVSDLEQLKKYADE 60

Query: 155 FPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPN 214
                        +  +   PGP T IL ASK    K V  G           VGVR+P+
Sbjct: 61  LE-------EAALKLAERFWPGPITLILPASKSSLPKLVTPG--------LGTVGVRLPD 105

Query: 215 DAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDFVVDGGV-RVAEPST 273
             + + +L+ +  PL++TS   L       D   + +  G   +D ++DGG   V   ST
Sbjct: 106 HPLARLLLEALGEPLVATSAN-LSGEPSATDAEEVLEELG-GIVDLILDGGRIPVGVDST 163

Query: 274 VVDMTGTYPKIIRQG 288
           VVD+T   P+I+R+G
Sbjct: 164 VVDLTDGKPRILRRG 178

This domain has been shown to bind preferentially to dsRNA. The domain is found in SUA5 as well as HypF and YrdC. It has also been shown to be required for telomere recombniation in yeast. Length = 178
>gnl|CDD|223088 COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|232802 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family Back     alignment and domain information
>gnl|CDD|183245 PRK11630, PRK11630, hypothetical protein; Provisional Back     alignment and domain information
>gnl|CDD|182603 PRK10634, PRK10634, tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 314
PRK11630206 hypothetical protein; Provisional 100.0
COG0009211 SUA5 Putative translation factor (SUA5) [Translati 100.0
TIGR00057201 Sua5/YciO/YrdC/YwlC family protein. partial match 100.0
PRK10634190 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modif 100.0
PF01300179 Sua5_yciO_yrdC: Telomere recombination; InterPro: 100.0
TIGR00143 711 hypF [NiFe] hydrogenase maturation protein HypF. A 100.0
KOG3051261 consensus RNA binding/translational regulation pro 99.96
COG0068 750 HypF Hydrogenase maturation factor [Posttranslatio 99.88
KOG3051261 consensus RNA binding/translational regulation pro 99.11
COG2192555 Predicted carbamoyl transferase, NodU family [Post 97.12
>PRK11630 hypothetical protein; Provisional Back     alignment and domain information 
Probab=100.00  E-value=5.1e-55  Score=395.60  Aligned_cols=203  Identities=32%  Similarity=0.606  Sum_probs=184.7

Q ss_pred             EEEeCCCCCChhhHHHHHHHHHcCCEEEEecCcEEEEEcccCChHHHHHHHHHhcCCCCCCeEEEeCChHHHhhhhccCC
Q 021316           77 YVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGFP  156 (314)
Q Consensus        77 ~~~v~~~~~~~~~l~~av~~Lk~GgVVi~PTDTvYgL~cda~n~~AVerL~~iK~R~~~KPl~llv~sl~~l~~~~~~~p  156 (314)
                      ++++++++++.+.+++|+++|++||||+|||||+|||+||++|++||+|||++|+|+.+|||+++|+|++++.+|+. ++
T Consensus         4 ~~~~~~~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgL~~d~~n~~Av~~l~~lK~R~~~Kpl~ll~~~~~~~~~~~~-~~   82 (206)
T PRK11630          4 FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSF-VD   82 (206)
T ss_pred             eEecCCCCCCHHHHHHHHHHHHCCCEEEEeCCChHhhhcCCCCHHHHHHHHHHcCCCCCCCeEEEECCHHHHHHHhc-CC
Confidence            45688889998889999999999999999999999999999999999999999999999999999999999999996 43


Q ss_pred             CCCCCCcHHHHHHHHhcCCCceEEEecCCCCCCcchhccCccceecCCCCeEEEEecChHHHHHHHHhCCCceeeccccc
Q 021316          157 RGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKW  236 (314)
Q Consensus       157 ~~~~~~~~~~~~li~~~wPGPlTlIlpa~~~lP~~l~~~g~~t~~~~~~~tIgVRiP~~~i~~~Ll~~~G~PL~sTSAN~  236 (314)
                             +..++++++|||||+|+|+++++.+|+.+        ..++.++||||||+|+++++|++.+|.||++||||+
T Consensus        83 -------~~~~~l~~~~wPGplT~Il~a~~~~p~~~--------~~~~~~tigiRip~~~~~~~L~~~~g~PL~~TSAN~  147 (206)
T PRK11630         83 -------NVAFRLMKNNTPGNYTFILKGTKEVPRRL--------LQEKRKTIGLRVPSNPIALALLEALGEPMLSTSLML  147 (206)
T ss_pred             -------HHHHHHHHhcCCCCeEEEEECCCCCCHHH--------cCCCCCeEEEECCCCHHHHHHHHHhCCcEEECCcCc
Confidence                   25789999999999999999999999733        134678999999999999999999999999999999


Q ss_pred             CCCCCCCCCHHHHHHHcCCCCccEEEeCCCCCCCCCeEEEEeCCccEEEEeCCCCCccee
Q 021316          237 LKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWM  296 (314)
Q Consensus       237 SG~~~~~~~~~~i~~~~~~~~vDlIvDgg~~~~~pSTIVdlt~~~~~ILR~G~~~~~~~~  296 (314)
                      ||++.+..+++++.+.|+. .+|+|+|+|...++||||||++++.++|||+|+|+.+.|+
T Consensus       148 sG~~~~~~~~~~i~~~~~~-~vd~ildg~~~~~~pSTIvd~~~~~~~ilR~G~~~~~~~~  206 (206)
T PRK11630        148 PGSDFTESDPEEIKDRLEK-QVDLIIHGGYLGQQPTTVIDLTDDTPVVVREGVGDVKPFL  206 (206)
T ss_pred             CCCCCCCCCHHHHHHHhcC-CceEEEeCCCCCCCCCEEEEccCCceEEEecCCCchhhcC
Confidence            9986545788999998985 7999999998777999999999999999999999987763

>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR00057 Sua5/YciO/YrdC/YwlC family protein Back     alignment and domain information
>PRK10634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional Back     alignment and domain information
>PF01300 Sua5_yciO_yrdC: Telomere recombination; InterPro: IPR006070 The YrdC family of hypothetical proteins are widely distributed in eukaryotes and prokaryotes and occur as: (i) independent proteins, (ii) with C-terminal extensions, and (iii) as domains in larger proteins, some of which are implicated in regulation [] Back     alignment and domain information
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF Back     alignment and domain information
>KOG3051 consensus RNA binding/translational regulation protein of the SUA5 family [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG3051 consensus RNA binding/translational regulation protein of the SUA5 family [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG2192 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, 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 ?
Query314
1kk9_A221 Crystal Structure Of E. Coli Ycio Length = 221 3e-25
1k7j_A206 Structural Genomics, Protein Tf1 Length = 206 4e-25
1jcu_A208 Solution Structure Of Mth1692 Protein From Methanob 1e-17
3aje_A 352 Crystal Structure Of S. Tokodaii Sua5 Complexed Wit 1e-05
2eqa_A 352 Crystal Structure Of The Hypothetical Sua5 Protein 2e-05
1hru_A188 The Structure Of The Yrdc Gene Product From E.Coli 3e-05
>pdb|1KK9|A Chain A, Crystal Structure Of E. Coli Ycio Length = 221 Back     alignment and structure 
Iteration: 1

 Score =  112 bits (280), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/210 (31%), Positives = 111/210 (52%), Gaps = 19/210 (9%)
Query: 82  PSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSIL 141
           P       +   VE++++G V V PTD+ YA+ C ++  +A ER+ RI+ +      ++ 
Sbjct: 24  PDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLX 83
Query: 142 CRSLRDIDTYTTGFPRGDGQGHANI-FRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTA 200
           CR L ++ TY+            N+ FR  K+  PG YTFIL  +KEVP++ ++      
Sbjct: 84  CRDLSELSTYSFV---------DNVAFRLXKNNTPGNYTFILKGTKEVPRRLLQ------ 128
Query: 201 KYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPEGLDF 260
               RK +G R+P++ I QA+L+ +  P +STS+          DP  I D    + +D 
Sbjct: 129 --EKRKTIGXRVPSNPIAQALLEALGEPXLSTSLXLPGSEFTESDPEEIKDRLEKQ-VDL 185
Query: 261 VVDGGVRVAEPSTVVDMTGTYPKIIRQGKG 290
           ++ GG    +P+TV+D+T   P ++R+G G
Sbjct: 186 IIHGGYLGQKPTTVIDLTDDTPVVVREGVG 215
>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1 Length = 206 Back     alignment and structure
>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From Methanobacterium Thermoautotrophicum Length = 208 Back     alignment and structure
>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With L-Threonine And Amppnp Length = 352 Back     alignment and structure
>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From Sulfolobus Tokodaii Length = 352 Back     alignment and structure
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli Length = 188 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 ?
Query314
1k7j_A206 Protein YCIO, protein TF1; structural genomics, X- 3e-57
1jcu_A208 Conserved protein MTH1692; mixed alpha-beta struct 5e-29
1hru_A188 YRDC gene product; protein folding, structural gen 1e-16
2eqa_A 352 Hypothetical protein ST1526; YRDC/RIBB fold, YRDC 9e-13
3vth_A 761 Hydrogenase maturation factor; carbamoyltransfer, 3e-12
3l7v_A295 Putative uncharacterized protein SMU.1377C; transc 2e-09
3ttc_A 657 HYPF, transcriptional regulatory protein; Zn finge 7e-09
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A Length = 206 Back     alignment and structure
 Score =  182 bits (465), Expect = 3e-57
 Identities = 66/215 (30%), Positives = 115/215 (53%), Gaps = 17/215 (7%)

Query: 77  YVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSK 136
           +    P       +   VE++++G V V PTD+ YA+ C ++  +A+ER+ RI+ +    
Sbjct: 4   FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGH 63

Query: 137 PLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYG 196
             +++CR L ++ TY+              FR +K+  PG YTFIL  +KEVP++ +   
Sbjct: 64  NFTLMCRDLSELSTYS--------FVDNVAFRLMKNNTPGNYTFILKGTKEVPRRLL--- 112

Query: 197 TTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPE 256
               K   RK +G+R+P++ I QA+L+ +  P++STS+          DP  I D    +
Sbjct: 113 --QEK---RKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQ 167

Query: 257 GLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGP 291
            +D ++ GG    +P+TV+D+T   P ++R+G G 
Sbjct: 168 -VDLIIHGGYLGQKPTTVIDLTDDTPVVVREGVGD 201
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1 Length = 208 Back     alignment and structure
>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5, PSI, protein structure initiative, midwest center for structural genomics; 2.00A {Escherichia coli} SCOP: d.115.1.1 Length = 188 Back     alignment and structure
>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5 domain, structural genomics, NPPSFA; HET: AMP; 1.80A {Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A* Length = 352 Back     alignment and structure
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A Length = 761 Back     alignment and structure
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A {Streptococcus mutans} Length = 295 Back     alignment and structure
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A Length = 657 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query314
1k7j_A206 Protein YCIO, protein TF1; structural genomics, X- 100.0
1jcu_A208 Conserved protein MTH1692; mixed alpha-beta struct 100.0
2eqa_A 352 Hypothetical protein ST1526; YRDC/RIBB fold, YRDC 100.0
1hru_A188 YRDC gene product; protein folding, structural gen 100.0
3vth_A 761 Hydrogenase maturation factor; carbamoyltransfer, 100.0
3ttc_A 657 HYPF, transcriptional regulatory protein; Zn finge 100.0
3l7v_A295 Putative uncharacterized protein SMU.1377C; transc 100.0
4g9i_A 772 Hydrogenase maturation protein HYPF; zinc finger, 100.0
3ven_A576 O-carbamoyltransferase TOBZ; antibiotic biosynthes 97.23
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A Back     alignment and structure
Probab=100.00  E-value=4.7e-53  Score=381.22  Aligned_cols=203  Identities=32%  Similarity=0.610  Sum_probs=186.1

Q ss_pred             EEEEeCCCCCChhhHHHHHHHHHcCCEEEEecCcEEEEEcccCChHHHHHHHHHhcCCCCCCeEEEeCChHHHhhhhccC
Q 021316           76 MYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGF  155 (314)
Q Consensus        76 ~~~~v~~~~~~~~~l~~av~~Lk~GgVVi~PTDTvYgL~cda~n~~AVerL~~iK~R~~~KPl~llv~sl~~l~~~~~~~  155 (314)
                      .++++++++++.+.+++|+++|++||||+|||||+|||+||++|++|++|||++|+|+.+|||+++|+|++++.+|+. +
T Consensus         3 ~~~~~~~~~~~~~~i~~a~~~L~~G~iva~pTdtvygL~~da~n~~Av~rl~~~K~R~~~kPl~v~~~~~~~~~~~~~-~   81 (206)
T 1k7j_A            3 QFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSF-V   81 (206)
T ss_dssp             EEEECCSSSCCHHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHHHHTCCTTCCCEEECSSHHHHHHHBC-C
T ss_pred             ceEecCCCCCCHHHHHHHHHHHHCCCEEEEECCCEEEEEEeCCCHHHHHHHHHHcCCCCCCCEEEEECCHHHHHHHhc-C
Confidence            478899999999999999999999999999999999999999999999999999999999999999999999999985 5


Q ss_pred             CCCCCCCcHHHHHHHHhcCCCceEEEecCCCCCCcchhccCccceecCCCCeEEEEecChHHHHHHHHhCCCceeecccc
Q 021316          156 PRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVK  235 (314)
Q Consensus       156 p~~~~~~~~~~~~li~~~wPGPlTlIlpa~~~lP~~l~~~g~~t~~~~~~~tIgVRiP~~~i~~~Ll~~~G~PL~sTSAN  235 (314)
                      +       +..++++++|||||+|||+++++.+|+++.        .++.+|||||+|+||++++|++.+|.||++||||
T Consensus        82 ~-------~~~~~ll~~~~PGp~T~il~~~~~~p~~~~--------~~~~~tvgvR~P~~p~~~~Ll~~~g~Pl~~TSAN  146 (206)
T 1k7j_A           82 D-------NVAFRLMKNNTPGNYTFILKGTKEVPRRLL--------QEKRKTIGMRVPSNPIAQALLEALGEPMLSTSLM  146 (206)
T ss_dssp             C-------HHHHHHHHTSCSSSEEEEEEBCTTSCGGGS--------CTTTCEEEEECCCSHHHHHHHHHHCSCEEEEECB
T ss_pred             C-------HHHHHHHHcCCCCCeEEEEECCCCCCHHHc--------CCCCCeEEEEecCCHHHHHHHHHhCCceEECCcc
Confidence            4       367899999999999999999999998532        3467899999999999999999999999999999


Q ss_pred             cCCCCCCCCCHHHHHHHcCCCCccEEEeCCCCCCCCCeEEEEeCCccEEEEeCCCCCcce
Q 021316          236 WLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYW  295 (314)
Q Consensus       236 ~SG~~~~~~~~~~i~~~~~~~~vDlIvDgg~~~~~pSTIVdlt~~~~~ILR~G~~~~~~~  295 (314)
                      +||++.+..+++++.+.|+. .+|+|+|+|.....+|||||++++.++|||+|+|+.+.+
T Consensus       147 ~sG~~~p~~~~~~~~~~l~~-~vd~ild~g~~~~~~STVvd~~~~~~~ilR~G~g~~~~~  205 (206)
T 1k7j_A          147 LPGSEFTESDPEEIKDRLEK-QVDLIIHGGYLGQKPTTVIDLTDDTPVVVREGVGDVKPF  205 (206)
T ss_dssp             CTTCSSBCCCHHHHHHHHTT-TCSEEEECCCCCSCCCEEEECGGGCCEEEECCSSCSGGG
T ss_pred             cCCCCCCCCCHHHHHHHhCC-CCcEEEeCCCCCCCCCeEEEeeCCcEEEEEeCCCChHHc
Confidence            99997656789999998974 899999999766789999999988899999999987554
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1 Back     alignment and structure
>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5 domain, structural genomics, NPPSFA; HET: AMP; 1.80A {Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A* Back     alignment and structure
>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5, PSI, protein structure initiative, midwest center for structural genomics; 2.00A {Escherichia coli} SCOP: d.115.1.1 Back     alignment and structure
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A Back     alignment and structure
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A Back     alignment and structure
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A {Streptococcus mutans} Back     alignment and structure
>4g9i_A Hydrogenase maturation protein HYPF; zinc finger, ATP binding, carbamoyla transferase; 4.50A {Thermococcus kodakarensis} Back     alignment and structure
>3ven_A O-carbamoyltransferase TOBZ; antibiotic biosynthesis, substrate assisted catalysis, subst channeling, adenylation; HET: TLA; 1.57A {Streptoalloteichus tenebrarius} PDB: 3veo_A 3ves_A* 3vet_A* 3vew_A* 3ver_A* 3vf4_A* 3vf2_A* 3vex_A* 3vez_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 314
d1k7ja_206 d.115.1.1 (A:) Hypothetical protein YciO {Escheric 9e-31
d1jcua_208 d.115.1.1 (A:) Hypothetical protein MTH1692 {Archa 2e-21
d1hrua_186 d.115.1.1 (A:) Hypothetical protein YrdC {Escheric 6e-19
>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]} Length = 206 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

 Score =  113 bits (282), Expect = 9e-31
 Identities = 64/220 (29%), Positives = 116/220 (52%), Gaps = 17/220 (7%)

Query: 77  YVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSK 136
           +    P       +   VE++++G V V PTD+ YA+ C ++  +A+ER+ RI+ +    
Sbjct: 4   FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGH 63

Query: 137 PLSILCRSLRDIDTYTTGFPRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYG 196
             +++CR L ++ TY+              FR +K+  PG YTFIL  +KEVP++ ++  
Sbjct: 64  NFTLMCRDLSELSTYS--------FVDNVAFRLMKNNTPGNYTFILKGTKEVPRRLLQEK 115

Query: 197 TTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVKWLKDNEWMVDPVVIADTYGPE 256
             T        +G+R+P++ I QA+L+ +  P++STS+          DP  I D    +
Sbjct: 116 RKT--------IGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQ 167

Query: 257 GLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWM 296
            +D ++ GG    +P+TV+D+T   P ++R+G G    ++
Sbjct: 168 -VDLIIHGGYLGQKPTTVIDLTDDTPVVVREGVGDVKPFL 206
>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 208 Back     information, alignment and structure
>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]} Length = 186 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 ?
Query314
d1k7ja_206 Hypothetical protein YciO {Escherichia coli [TaxId 100.0
d1jcua_208 Hypothetical protein MTH1692 {Archaeon Methanobact 100.0
d1hrua_186 Hypothetical protein YrdC {Escherichia coli [TaxId 100.0
>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=2.2e-55  Score=393.70  Aligned_cols=204  Identities=32%  Similarity=0.611  Sum_probs=187.8

Q ss_pred             EEEEeCCCCCChhhHHHHHHHHHcCCEEEEecCcEEEEEcccCChHHHHHHHHHhcCCCCCCeEEEeCChHHHhhhhccC
Q 021316           76 MYVEADPSGADSWKLEPVVELLKEGAVGVVPTDTLYAIVCDLKSHSAIERLRRIKNVEPSKPLSILCRSLRDIDTYTTGF  155 (314)
Q Consensus        76 ~~~~v~~~~~~~~~l~~av~~Lk~GgVVi~PTDTvYgL~cda~n~~AVerL~~iK~R~~~KPl~llv~sl~~l~~~~~~~  155 (314)
                      .|+++||+|||.+.+++|++.|++||||++||||+|||+||++|++|++|||++|+|+.+|||+++++|++++.+|+. +
T Consensus         3 ~~~~~~~~~p~~~~i~~a~~~L~~G~vv~~PTdTvYgl~~da~~~~av~~i~~iK~R~~~kpl~vlv~~~~~~~~~~~-~   81 (206)
T d1k7ja_           3 QFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSF-V   81 (206)
T ss_dssp             EEEECCSSSCCHHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHHHHTCCTTCCCEEECSSHHHHHHHBC-C
T ss_pred             ceEEeCCCCCCHHHHHHHHHHHHcCCEEEEECCceeEEEEeCCChHHHHHHHHhhccccccccccccCCHHHHHHHhh-h
Confidence            378899999999999999999999999999999999999999999999999999999999999999999999999986 4


Q ss_pred             CCCCCCCcHHHHHHHHhcCCCceEEEecCCCCCCcchhccCccceecCCCCeEEEEecChHHHHHHHHhCCCceeecccc
Q 021316          156 PRGDGQGHANIFRAVKHCLPGPYTFILTASKEVPKKCVRYGTTTAKYSLRKHVGVRIPNDAICQAILQKMDAPLISTSVK  235 (314)
Q Consensus       156 p~~~~~~~~~~~~li~~~wPGPlTlIlpa~~~lP~~l~~~g~~t~~~~~~~tIgVRiP~~~i~~~Ll~~~G~PL~sTSAN  235 (314)
                      +       ..+++++++|||||+|+|+++++.++..+.        ..+.++||||||+|+++++|++.+|.||++||||
T Consensus        82 ~-------~~~~~l~~~~wPgplT~i~~~~~~~~~~~~--------~~~~~tv~iRip~~~~~~~Ll~~~~~Pl~sTSAN  146 (206)
T d1k7ja_          82 D-------NVAFRLMKNNTPGNYTFILKGTKEVPRRLL--------QEKRKTIGMRVPSNPIAQALLEALGEPMLSTSLM  146 (206)
T ss_dssp             C-------HHHHHHHHTSCSSSEEEEEEBCTTSCGGGS--------CTTTCEEEEECCCSHHHHHHHHHHCSCEEEEECB
T ss_pred             h-------hhhhhhhccccccceeeeecCCccccchhh--------ccccceeeeeecccchhHHHHHhhcCceeeeccc
Confidence            3       367899999999999999999988876542        3567899999999999999999999999999999


Q ss_pred             cCCCCCCCCCHHHHHHHcCCCCccEEEeCCCCCCCCCeEEEEeCCccEEEEeCCCCCccee
Q 021316          236 WLKDNEWMVDPVVIADTYGPEGLDFVVDGGVRVAEPSTVVDMTGTYPKIIRQGKGPKLYWM  296 (314)
Q Consensus       236 ~SG~~~~~~~~~~i~~~~~~~~vDlIvDgg~~~~~pSTIVdlt~~~~~ILR~G~~~~~~~~  296 (314)
                      +||++.+..+.+++.+.|+. .+|+|+|+|...+.+|||||+++++++|||+|+|+.++||
T Consensus       147 ~sG~~~~~~~~~~i~~~~~~-~vd~iid~g~~~~~pSTIid~~~~~~~ilR~Ga~~~~~~l  206 (206)
T d1k7ja_         147 LPGSEFTESDPEEIKDRLEK-QVDLIIHGGYLGQKPTTVIDLTDDTPVVVREGVGDVKPFL  206 (206)
T ss_dssp             CTTCSSBCCCHHHHHHHHTT-TCSEEEECCCCCSCCCEEEECGGGCCEEEECCSSCSGGGC
T ss_pred             ccccccccCCHHHHHHHhCC-CceEEEeCCCcCCCCCeEEEEECCCeEEEecCCCCchhhC
Confidence            99987556678889998984 7999999998778999999999999999999999998875
>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure