Psyllid ID: psy13744

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------
MTGGFMSPRISSPMHPSGGRGGRGGGRGGHHGGNVRRDRELIGKTIKITGGPYKVGSRTPGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPSPSGYQSHSGVSSGSSSYLGATPSPSSEAAPYGTPSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKPE
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccEEEEEEEcccEEEEEEccccEEEEEEccccEEcccccccEEEEEEccccccEEEEEEEEccccEEEEcccccEEEEcccccEEcccc
cccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccccccEEEEEEEcccEEEEEEcccccEEEEcHHccEEcccccccEEEEEEccccccEEEEEEEccccEEEEEcccccEEEEEHHHHHHcccc
mtggfmsprisspmhpsggrggrgggrgghhggnvrrdreLIGKtikitggpykvgsrtpgggatplhdgsrtpgpwdpsstparsihndaypmddsfnnsyphtpgtmygsssehtsysplqaspspsgyqshsgvssgsssylgatpspsseaapygtpsplsyssrqaspftpgtgldqyptpewhttdievrinenardpefrgqigVIRHLGSGVCSVYLAEEERTLsieahelepvmpqpndKVKVIVGEHKECTGVLlsvdngegvvklteeddvkmiDVKFLCKYKPE
mtggfmsprisspmhpsggrggrgggrgghhggnvrrdreligktikitggpykvgsrtpGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPSPSGYQSHSGVSSGSSSYLGATPSPSSEAAPYGTPSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIeahelepvmpqPNDKVKVIVGEHKECTgvllsvdngegvvklteeddvkmidvkflckykpe
MTGGFMSPRISSPMHPSggrggrgggrgghhggNVRRDRELIGKTIKITGGPYKVGSRTPGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPspsgyqshsgvssgsssYLGATPSPSSEAAPYGTPSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKPE
*****************************************IGKTIKIT*****************************************************************************************************************************************EWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAH**********DKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKY***
*****************************************************************************************************************************************************************************************PEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYK**
********RISSP********************NVRRDRELIGKTIKITGGPYKVGSRTPGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGT****************************************************************PFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKPE
******SPRI**********************GNVRRDRELIGKTIKITGGPYKVGSRTPGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPSPSGYQSHSGVSSGSSSYLGATPSPSSEAAPYGTPSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKP*
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MTGGFMSPRISSPMHPSGGRGGRGGGRGGHHGGNVRRDRELIGKTIKITGGPYKVGSRTPGGGATPLHDGSRTPGPWDPSSTPARSIHNDAYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPSPSGYQSHSGVSSGSSSYLGATPSPSSEAAPYGTPSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKPE
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 ?
Query296 2.2.26 [Sep-21-2011]
O002671087 Transcription elongation yes N/A 0.959 0.261 0.356 1e-39
O552011082 Transcription elongation yes N/A 0.959 0.262 0.347 2e-39
Q5R4051083 Transcription elongation yes N/A 0.959 0.262 0.356 2e-39
Q5ZI081079 Transcription elongation yes N/A 0.945 0.259 0.344 2e-38
Q9DDT51084 Transcription elongation yes N/A 0.797 0.217 0.382 1e-34
Q9V4601078 Transcription elongation yes N/A 0.733 0.201 0.357 1e-28
Q9STN31041 Putative transcription el yes N/A 0.756 0.215 0.330 3e-18
Q213381208 Transcription elongation yes N/A 0.780 0.191 0.256 5e-10
O80770989 Putative transcription el no N/A 0.668 0.200 0.305 5e-08
>sp|O00267|SPT5H_HUMAN Transcription elongation factor SPT5 OS=Homo sapiens GN=SUPT5H PE=1 SV=1 Back     alignment and function desciption
 Score =  163 bits (413), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 154/432 (35%), Positives = 202/432 (46%), Gaps = 148/432 (34%)

Query: 2    TGGF--MSPRISSPMHPSGG-----RGGRGGGRGGHHGGNVRRDRELIGKTIKITGGPYK 54
             GGF  MSPRISSPMHPS G      G  GGG GG   G  RRD ELIG+T++I+ GPYK
Sbjct: 659  VGGFAPMSPRISSPMHPSAGGQRGGFGSPGGGSGGMSRGRGRRDNELIGQTVRISQGPYK 718

Query: 55   ----------------------------------VGSRTPGG-----GATP--------- 66
                                              VGSR PGG     G TP         
Sbjct: 719  GYIGVVKDATESTARVELHSTCQTISVDRQRLTTVGSRRPGGMTSTYGRTPMYGSQTPMY 778

Query: 67   -----------------------------LHDGSRTP---GPWDPS--STPARSIHNDAY 92
                                         LHDGSRTP   G WDP+  +TP+R+     Y
Sbjct: 779  GSGSRTPMYGSQTPLQDGSRTPHYGSQTPLHDGSRTPAQSGAWDPNNPNTPSRAEEEYEY 838

Query: 93   PMDD--------------------------SFNNSY-PHTPGT--MYGSS--------SE 115
              DD                            N  Y P TPGT  MY +         S 
Sbjct: 839  AFDDEPTPSPQAYGGTPNPQTPGYPDPSSPQVNPQYNPQTPGTPAMYNTDQFSPYAAPSP 898

Query: 116  HTSYSPL-------QASPSPSGYQ-SHSGVS---SGSSSYLGATPSPS----SEAAPYGT 160
              SY P        Q +PSP+GYQ +HS  S   + S     A+PSPS    S   P G 
Sbjct: 899  QGSYQPSPSPQSYHQVAPSPAGYQNTHSPASYHPTPSPMAYQASPSPSPVGYSPMTP-GA 957

Query: 161  PSPLSYSSRQASPFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGV 220
            PSP  Y     +P TPG+G++Q  + +W TTDI+V++ +   D +  GQ GVIR +  G+
Sbjct: 958  PSPGGY-----NPHTPGSGIEQN-SSDWVTTDIQVKVRDTYLDTQVVGQTGVIRSVTGGM 1011

Query: 221  CSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEED 280
            CSVYL + E+ +SI +  LEP+ P  N+KVKVI+GE +E TGVLLS+D  +G+V++  ++
Sbjct: 1012 CSVYLKDSEKVVSISSEHLEPITPTKNNKVKVILGEDREATGVLLSIDGEDGIVRMDLDE 1071

Query: 281  DVKMIDVKFLCK 292
             +K+++++FL K
Sbjct: 1072 QLKILNLRFLGK 1083
Component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates mRNA processing and transcription elongation by RNA polymerase II. DSIF positively regulates mRNA capping by stimulating the mRNA guanylyltransferase activity of RNGTT/CAP1A. DSIF also acts cooperatively with the negative elongation factor complex (NELF complex) to enhance transcriptional pausing at sites proximal to the promoter. Transcriptional pausing may facilitate the assembly of an elongation competent RNA polymerase II complex. DSIF and NELF promote pausing by inhibition of the transcription elongation factor TFIIS/S-II. TFIIS/S-II binds to RNA polymerase II at transcription pause sites and stimulates the weak intrinsic nuclease activity of the enzyme. Cleavage of blocked transcripts by RNA polymerase II promotes the resumption of transcription from the new 3' terminus and may allow repeated attempts at transcription through natural pause sites. DSIF can also positively regulate transcriptional elongation and is required for the efficient activation of transcriptional elongation by the HIV-1 nuclear transcriptional activator, Tat. DSIF acts to suppress transcriptional pausing in transcripts derived from the HIV-1 LTR and blocks premature release of HIV-1 transcripts at terminator sequences.
Homo sapiens (taxid: 9606)
>sp|O55201|SPT5H_MOUSE Transcription elongation factor SPT5 OS=Mus musculus GN=Supt5h PE=1 SV=1 Back     alignment and function description
>sp|Q5R405|SPT5H_PONAB Transcription elongation factor SPT5 OS=Pongo abelii GN=SUPT5H PE=2 SV=1 Back     alignment and function description
>sp|Q5ZI08|SPT5H_CHICK Transcription elongation factor SPT5 OS=Gallus gallus GN=SUPT5H PE=2 SV=1 Back     alignment and function description
>sp|Q9DDT5|SPT5H_DANRE Transcription elongation factor SPT5 OS=Danio rerio GN=supt5h PE=1 SV=1 Back     alignment and function description
>sp|Q9V460|SPT5H_DROME Transcription elongation factor SPT5 OS=Drosophila melanogaster GN=Spt5 PE=1 SV=1 Back     alignment and function description
>sp|Q9STN3|SPT51_ARATH Putative transcription elongation factor SPT5 homolog 1 OS=Arabidopsis thaliana GN=At4g08350 PE=1 SV=2 Back     alignment and function description
>sp|Q21338|SPT5H_CAEEL Transcription elongation factor SPT5 OS=Caenorhabditis elegans GN=spt-5 PE=3 SV=3 Back     alignment and function description
>sp|O80770|SPT52_ARATH Putative transcription elongation factor SPT5 homolog 2 OS=Arabidopsis thaliana GN=At2g34210 PE=2 SV=2 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 ?
Query296
350414148 1133 PREDICTED: transcription elongation fact 0.959 0.250 0.399 5e-50
380016442 1014 PREDICTED: transcription elongation fact 0.942 0.275 0.409 3e-49
380016440 1077 PREDICTED: transcription elongation fact 0.956 0.262 0.404 2e-48
328775915 1134 PREDICTED: LOW QUALITY PROTEIN: transcri 0.790 0.206 0.458 3e-48
383859710 1135 PREDICTED: transcription elongation fact 0.790 0.206 0.458 3e-48
340717676 1075 PREDICTED: transcription elongation fact 0.962 0.265 0.390 3e-48
340717674 1133 PREDICTED: transcription elongation fact 0.962 0.251 0.387 5e-48
380016438 1135 PREDICTED: transcription elongation fact 0.956 0.249 0.403 2e-47
307213971 1053 Transcription elongation factor SPT5 [Ha 0.962 0.270 0.392 2e-47
332029065 1142 Transcription elongation factor SPT5 [Ac 0.962 0.249 0.391 2e-47
>gi|350414148|ref|XP_003490220.1| PREDICTED: transcription elongation factor SPT5-like [Bombus impatiens] Back     alignment and taxonomy information
 Score =  204 bits (518), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 164/411 (39%), Positives = 203/411 (49%), Gaps = 127/411 (30%)

Query: 2    TGGFMSPRISSPMHPSGGRGGRGGGRGGHHGGNVRR--DRELIGKTIKITGGPYK--VG- 56
              GFMSPRI+SPMHPSGG  GRGGG G   G       DRELIG TIKITGGPYK  VG 
Sbjct: 728  VAGFMSPRIASPMHPSGGGFGRGGGGGRGRGRGGGARRDRELIGTTIKITGGPYKGNVGI 787

Query: 57   ------------------------------------------SRTP--GGGATPLH--DG 70
                                                      +RTP  GGG TP++  DG
Sbjct: 788  VKDATETTARVELHSTCQTISVDRSHIANVAVLTKDGGFSSYNRTPAYGGGQTPMYARDG 847

Query: 71   SRTP----------------------------------GPWDPS--STPARSIHNDAYPM 94
            S+TP                                  G WDP+  +TPAR+   D Y M
Sbjct: 848  SKTPMHGSQTPMYENGSRTPHYGSMTPSHDGSRTPGQSGAWDPAVTNTPARTNDFDGYSM 907

Query: 95   DDSFNNSY-----------PHTPGTMYGSSSEHTSYSP-------LQASPSPSGYQSHSG 136
            ++  +  Y           P TPGTMYGS    +SY P         ASPSP+GY     
Sbjct: 908  EEGGSPGYAPGYPSTGPFTPQTPGTMYGSEQSFSSYQPSPSPAGSASASPSPTGY----- 962

Query: 137  VSSGSSSYLGATPSPSSEAAPYGTPSPLSYSSRQ-------ASPFTPGTGLDQ------Y 183
            V++ S S  G T SP      + TPSP+ YS           +P TPG GLD        
Sbjct: 963  VATPSPSGTGYTTSPH---GAFATPSPMGYSPMTPGVAGSPYNPQTPGAGLDTNVGSGII 1019

Query: 184  PTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVYLAEEERTLSIEAHELEPVM 243
               EWHTTDIEVRI ++ +DP   GQ GVIR +  G+CS++L  E+R +++   ELEPV+
Sbjct: 1020 GGAEWHTTDIEVRIRDSHQDPALAGQQGVIRGISGGMCSIFLPVEDRVVNLICEELEPVV 1079

Query: 244  PQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYK 294
            P   D+VKVI+GE +E  G LLS+DN EGVVKL  +D+VKM+ ++FLCK K
Sbjct: 1080 PSRGDRVKVIIGEDREAVGTLLSIDNQEGVVKLN-KDEVKMLHLRFLCKMK 1129

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|380016442|ref|XP_003692194.1| PREDICTED: transcription elongation factor SPT5-like isoform 3 [Apis florea] Back     alignment and taxonomy information
>gi|380016440|ref|XP_003692193.1| PREDICTED: transcription elongation factor SPT5-like isoform 2 [Apis florea] Back     alignment and taxonomy information
>gi|328775915|ref|XP_003249083.1| PREDICTED: LOW QUALITY PROTEIN: transcription elongation factor SPT5 [Apis mellifera] Back     alignment and taxonomy information
>gi|383859710|ref|XP_003705335.1| PREDICTED: transcription elongation factor SPT5-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|340717676|ref|XP_003397305.1| PREDICTED: transcription elongation factor SPT5-like isoform 2 [Bombus terrestris] Back     alignment and taxonomy information
>gi|340717674|ref|XP_003397304.1| PREDICTED: transcription elongation factor SPT5-like isoform 1 [Bombus terrestris] Back     alignment and taxonomy information
>gi|380016438|ref|XP_003692192.1| PREDICTED: transcription elongation factor SPT5-like isoform 1 [Apis florea] Back     alignment and taxonomy information
>gi|307213971|gb|EFN89194.1| Transcription elongation factor SPT5 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|332029065|gb|EGI69079.1| Transcription elongation factor SPT5 [Acromyrmex echinatior] 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 ?
Query296
FB|FBgn00402731078 Spt5 "Spt5" [Drosophila melano 0.736 0.202 0.381 1.1e-43
ZFIN|ZDB-GENE-001207-11084 supt5h "suppressor of Ty 5 hom 0.763 0.208 0.341 1.6e-35
UNIPROTKB|Q5R4051083 SUPT5H "Transcription elongati 0.743 0.203 0.355 6.7e-31
UNIPROTKB|F2Z3T6888 F2Z3T6 "Uncharacterized protei 0.743 0.247 0.358 7.4e-31
MGI|MGI:12024001082 Supt5 "suppressor of Ty 5" [Mu 0.743 0.203 0.358 1.1e-30
UNIPROTKB|E9PTB21083 E9PTB2 "Uncharacterized protei 0.743 0.203 0.358 1.1e-30
UNIPROTKB|I3LA481083 SUPT5H "Uncharacterized protei 0.743 0.203 0.355 1.1e-30
UNIPROTKB|E1BC981083 SUPT5H "Uncharacterized protei 0.743 0.203 0.355 1.1e-30
UNIPROTKB|E2RLS81087 SUPT5H "Uncharacterized protei 0.743 0.202 0.355 1.1e-30
UNIPROTKB|O002671087 SUPT5H "Transcription elongati 0.743 0.202 0.355 1.1e-30
FB|FBgn0040273 Spt5 "Spt5" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 353 (129.3 bits), Expect = 1.1e-43, Sum P(2) = 1.1e-43
 Identities = 98/257 (38%), Positives = 137/257 (53%)

Query:    57 SRTPGGGATPLHDGSRTP--GPWDPSS--TPARSIHNDAYPMDD-SFNNSY-PHTPGTMY 110
             +RTP G  TP HDGS TP  G WDP++  TPAR+   D Y +++ S +  Y P TPG  Y
Sbjct:   839 TRTPYGTMTPSHDGSMTPRHGAWDPTANTTPARNNDFD-YSLEEPSPSPGYNPSTPG--Y 895

Query:   111 GSSSEHTSYSPLQASPXXXXXXXXXXXXXXXXXYLGATPSPSSEAAPY-----GTPSPLS 165
               +S+    +P                      Y    PSPS   +PY      TPSP +
Sbjct:   896 QMTSQFAPQTP-------------GTLYGSDRSYSPFNPSPSPAPSPYPVGYMNTPSPST 942

Query:   166 YSSRQA-----SPF---TPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLG 217
             YS         SP+   TPG  LD     +W TTDIEVRI+ +  D +  GQ G+IR + 
Sbjct:   943 YSPNTPGGIPQSPYNPQTPGASLDS-SMGDWCTTDIEVRIHTHD-DTDLVGQTGIIRTVS 1000

Query:   218 SGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLT 277
             +GVCSV+L +E+R++SI +  L PV+P   D+ K+I G+ +E  G +LS D    V ++ 
Sbjct:  1001 NGVCSVFLRQEDRSVSIVSEHLAPVLPCNGDEFKIIYGDDRESVGRVLSKDGDVFVCRIN 1060

Query:   278 EEDDVKMIDVKFLCKYK 294
             EE  +K++ + FLCK K
Sbjct:  1061 EE--IKLLPINFLCKMK 1075
GO:0006351 "transcription, DNA-dependent" evidence=NAS
GO:0005634 "nucleus" evidence=NAS
GO:0005703 "polytene chromosome puff" evidence=IDA
GO:0005705 "polytene chromosome interband" evidence=IDA
GO:0000176 "nuclear exosome (RNase complex)" evidence=IDA
GO:0008023 "transcription elongation factor complex" evidence=IPI
GO:0035101 "FACT complex" evidence=IPI
GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=IEA
GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP
GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IMP
GO:0007052 "mitotic spindle organization" evidence=IMP
GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI
ZFIN|ZDB-GENE-001207-1 supt5h "suppressor of Ty 5 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q5R405 SUPT5H "Transcription elongation factor SPT5" [Pongo abelii (taxid:9601)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z3T6 F2Z3T6 "Uncharacterized protein" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1202400 Supt5 "suppressor of Ty 5" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E9PTB2 E9PTB2 "Uncharacterized protein" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|I3LA48 SUPT5H "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E1BC98 SUPT5H "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RLS8 SUPT5H "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|O00267 SUPT5H "Transcription elongation factor SPT5" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query296
cd0608658 cd06086, KOW_Spt5_6, KOW domain of Spt5, repeat 6 6e-24
cd0608552 cd06085, KOW_Spt5_5, KOW domain of Spt5, repeat 5 0.001
cd0608251 cd06082, KOW_Spt5_2, KOW domain of Spt5, repeat 2 0.002
>gnl|CDD|240510 cd06086, KOW_Spt5_6, KOW domain of Spt5, repeat 6 Back     alignment and domain information 
 Score = 91.4 bits (228), Expect = 6e-24
 Identities = 25/57 (43%), Positives = 38/57 (66%)

Query: 238 ELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYK 294
            LEPV P+  D+VKVI GE +  TG L+S+D  +G+VK+  + D+K++ + FL K  
Sbjct: 2   HLEPVPPEKGDRVKVIKGEDRGSTGELISIDGADGIVKMDSDGDIKILPMNFLAKLV 58

Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases. Length = 58
>gnl|CDD|240509 cd06085, KOW_Spt5_5, KOW domain of Spt5, repeat 5 Back     alignment and domain information
>gnl|CDD|240506 cd06082, KOW_Spt5_2, KOW domain of Spt5, repeat 2 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 296
KOG1999|consensus1024 100.0
KOG4315|consensus455 99.03
KOG2837|consensus309 98.58
KOG1999|consensus1024 97.87
PF0046732 KOW: KOW motif; InterPro: IPR005824 Ribosomes are 97.37
PF12815123 CTD: Spt5 C-terminal nonapeptide repeat binding Sp 97.23
smart0073928 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i 97.04
PRK1228176 rplX 50S ribosomal protein L24; Reviewed 96.95
CHL0014183 rpl24 ribosomal protein L24; Validated 96.85
TIGR01080114 rplX_A_E ribosomal protein L24p/L26e, archaeal/euk 96.45
PRK00004105 rplX 50S ribosomal protein L24; Reviewed 96.38
TIGR01079104 rplX_bact ribosomal protein L24, bacterial/organel 96.3
PRK01191120 rpl24p 50S ribosomal protein L24P; Validated 96.1
PF1162353 DUF3252: Protein of unknown function (DUF3252); In 95.91
PTZ00194143 60S ribosomal protein L26; Provisional 95.63
PRK05609181 nusG transcription antitermination protein NusG; V 95.19
TIGR00405145 L26e_arch ribosomal protein L24p/L26e, archaeal. T 94.91
COG0198104 RplX Ribosomal protein L24 [Translation, ribosomal 94.65
TIGR00922172 nusG transcription termination/antitermination fac 94.5
PF1559174 Imm17: Immunity protein 17 93.94
COG5164 607 SPT5 Transcription elongation factor [Transcriptio 93.9
PRK08559153 nusG transcription antitermination protein NusG; V 93.09
PF12815123 CTD: Spt5 C-terminal nonapeptide repeat binding Sp 92.99
PRK09014162 rfaH transcriptional activator RfaH; Provisional 92.83
KOG0260|consensus1605 92.16
TIGR01955159 RfaH transcriptional activator RfaH. This model re 91.71
COG5164 607 SPT5 Transcription elongation factor [Transcriptio 91.45
COG0250178 NusG Transcription antiterminator [Transcription] 90.88
PRK04313237 30S ribosomal protein S4e; Validated 90.74
PTZ00223273 40S ribosomal protein S4; Provisional 90.35
PLN00036261 40S ribosomal protein S4; Provisional 89.92
PTZ00118262 40S ribosomal protein S4; Provisional 88.81
COG1471241 RPS4A Ribosomal protein S4E [Translation, ribosoma 88.57
PRK08559153 nusG transcription antitermination protein NusG; V 86.16
TIGR00405145 L26e_arch ribosomal protein L24p/L26e, archaeal. T 83.85
PRK04914 956 ATP-dependent helicase HepA; Validated 82.77
COG186297 YajC Preprotein translocase subunit YajC [Intracel 81.27
PLN00045101 photosystem I reaction center subunit IV; Provisio 81.05
TIGR0073984 yajC preprotein translocase, YajC subunit. While t 80.41
smart0074361 Agenet Tudor-like domain present in plant sequence 80.3
PRK05585106 yajC preprotein translocase subunit YajC; Validate 80.28
>KOG1999|consensus Back     alignment and domain information 
Probab=100.00  E-value=1e-49  Score=413.18  Aligned_cols=277  Identities=40%  Similarity=0.639  Sum_probs=221.8

Q ss_pred             CCCCCc-ccCCCCCCCCCCCCCCCCCCCcCCCCCccccccccceEEecCCccC---------------------------
Q psy13744          3 GGFMSP-RISSPMHPSGGRGGRGGGRGGHHGGNVRRDRELIGKTIKITGGPYK---------------------------   54 (296)
Q Consensus         3 ~~~~sp-ri~sp~~~~~g~g~~~~~~~g~~~~~~rrd~~liG~tvkI~~GpyK---------------------------   54 (296)
                      +++||| ||.|||||+++.|++|+.+|+||+   +||++|||+||||+.||||                           
T Consensus       650 l~~msP~r~~sp~~~~~~~ga~g~~gggrGg---~rd~~l~GktVrI~~Gp~KG~~GivkD~~~~~arVELhs~~~ti~v  726 (1024)
T KOG1999|consen  650 LAPMSPGRIQSPMGPSGGPGAFGGHGGGRGG---NRDDSLLGKTVRIRLGPKKGYLGIVKDVNGDTARVELHSKCVTIKV  726 (1024)
T ss_pred             cCCCCcccccCCcCCCCCCCCcCcCccCccC---cCcchhcCcEEEEecCCcccccceeEeccCCeeEEEEEeccEEEEe
Confidence            688999 999999999864333333333222   2999999999999999999                           


Q ss_pred             ------------------------------------CC---------------CCCCC--CCCCcCCCCCCCC---CCCC
Q psy13744         55 ------------------------------------VG---------------SRTPG--GGATPLHDGSRTP---GPWD   78 (296)
Q Consensus        55 ------------------------------------~g---------------srTP~--g~~TP~hdg~rTP---~awd   78 (296)
                                                          +|               +|||+  +++||+|||+|||   +|||
T Consensus       727 d~~~~~~v~~~~~~g~~~sYg~~~~~~g~~~~~~~~~Gs~tp~~~s~tpl~~~s~tp~~~~~~Tp~~dG~rTP~r~~aW~  806 (1024)
T KOG1999|consen  727 DRLKRKIVGSTRDGGETSSYGERTPGYGRVTPARYGMGSSTPMYGSNTPLWGGSRTPARDGGATPSHDGSRTPARGRAWN  806 (1024)
T ss_pred             chhhceEEeeccCCCCccccccccccccccCccccCCCCcCccCCCCCCCCCcccCccccCCCCcCCCCCcCCCCCCCcC
Confidence                                                23               45555  8999999999999   7999


Q ss_pred             C--CCCCCCCC-----CCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCccCCCCCCCCC
Q psy13744         79 P--SSTPARSI-----HND-AYPMDDSFNNSYPHTPGTMYGSSSEHTSYSPLQASPSPSGYQSH---SGVSSGSSSYLGA  147 (296)
Q Consensus        79 p--~~tP~r~~-----~~~-~p~tpg~~~~~~p~Tpg~~y~~~~~~~p~~~~~~spsp~~y~~~---~~~~~psp~~y~~  147 (296)
                      |  ++||+|++     +.+ .+ .+-|+-+|.++|||+.|++..   +...|+..-.|..|+..   +++.+|||     
T Consensus       807 ~~~~~tPa~~~~~~~~g~~g~~-g~sp~~~~~a~Tpg~~~~~~~---~~~~~~~~g~~~~~gsa~~~~~~~sps~-----  877 (1024)
T KOG1999|consen  807 PYNGKTPARNFDNREPGFEGSG-GRSPQGYYSAPTPGSNWGSTG---GGGAPAWPGTPNGNGSAWGPSGQNSPSP-----  877 (1024)
T ss_pred             CCCCCCCccccCCcccCCCCCC-CCCCCCCcCCCCCCCCCCcCC---CCCCcCCCCCCCCCccccccccCCCCCC-----
Confidence            9  89999953     111 11 011211258999998887622   33344444444333321   22334443     


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCcccCceEEEEecCCCCccccCCeEEEEEecCCeEEEE
Q psy13744        148 TPSPSSEAAPYGTPSPLSYSSRQAS---PFTPGTGLDQYPTPEWHTTDIEVRINENARDPEFRGQIGVIRHLGSGVCSVY  224 (296)
Q Consensus       148 tpsp~~~~~~~~tPsp~~y~p~tpg---p~TPg~g~d~~~~~~Wl~~dI~VkI~~~~~d~~yygqkGVVrsV~~g~c~V~  224 (296)
                        ||.+++ ..+|||+.+|.|.|||   |||||+++|.++. +| ..++.+.+.+...|..+.|+.+|||+|.+|.|+|+
T Consensus       878 --sp~~~~-~~~tpss~s~~p~tpgg~~~~Tpgs~~d~~~~-~~-~~~~~~~~~d~~~~~~~~G~~~~ir~v~~G~~sv~  952 (1024)
T KOG1999|consen  878 --SPWGYQ-NNPTPSSSSYGPKTPGGGNPMTPGSGLDSGSG-NG-GDGNSSWGPDTSLDTQLVGQTGIIRSVADGGCSVW  952 (1024)
T ss_pred             --CCccCc-cCCCCcccccCCCCCCCCCCCCCCccccccCC-CC-CccceEecccccccceecccccceeeccCCceeee
Confidence              455665 4789999999999997   9999999999987 89 88899999988888999999999999999999999


Q ss_pred             eCCCCeeeeeeCCceeEcCCCCCCeEEEEeCCCCCceEEEEEEeCCCcEEEEcCCCceeEeecchhhccCCC
Q psy13744        225 LAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEEDDVKMIDVKFLCKYKPE  296 (296)
Q Consensus       225 L~d~~~vv~V~q~~LEtViP~kGd~VkVI~Ge~RG~tG~LisID~~dgiVkld~~~d~kil~~~~L~Kl~~~  296 (296)
                      |.++++++++.+++|+++.|.++|.|||+.|++||.+|+|+++|..++|||+|+++++|||++.+||||+++
T Consensus       953 ~~de~~~~~~s~~~~a~~~p~~~d~~k~~~g~~~g~~~~~~~~dg~~g~~~~d~~~~~k~l~~~~~~k~~~~ 1024 (1024)
T KOG1999|consen  953 LGDEGETISNSKPHLAPAPPCKGDDVKSIWGDDRGSTGKLVGNDGWDGIVRIDETSDIKILNLGLLCKMVSP 1024 (1024)
T ss_pred             cCCCCcccccccccCccCCCCCCCCccccccccccccccccCCCcccceecccccccchhhhhhhhhhccCC
Confidence            999999999999999999999999999999999999999999999999999998889999999999999864

>KOG4315|consensus Back     alignment and domain information
>KOG2837|consensus Back     alignment and domain information
>KOG1999|consensus Back     alignment and domain information
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF12815 CTD: Spt5 C-terminal nonapeptide repeat binding Spt4; PDB: 2E70_A Back     alignment and domain information
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif Back     alignment and domain information
>PRK12281 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>CHL00141 rpl24 ribosomal protein L24; Validated Back     alignment and domain information
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic Back     alignment and domain information
>PRK00004 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle Back     alignment and domain information
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated Back     alignment and domain information
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function Back     alignment and domain information
>PTZ00194 60S ribosomal protein L26; Provisional Back     alignment and domain information
>PRK05609 nusG transcription antitermination protein NusG; Validated Back     alignment and domain information
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal Back     alignment and domain information
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR00922 nusG transcription termination/antitermination factor NusG Back     alignment and domain information
>PF15591 Imm17: Immunity protein 17 Back     alignment and domain information
>COG5164 SPT5 Transcription elongation factor [Transcription] Back     alignment and domain information
>PRK08559 nusG transcription antitermination protein NusG; Validated Back     alignment and domain information
>PF12815 CTD: Spt5 C-terminal nonapeptide repeat binding Spt4; PDB: 2E70_A Back     alignment and domain information
>PRK09014 rfaH transcriptional activator RfaH; Provisional Back     alignment and domain information
>KOG0260|consensus Back     alignment and domain information
>TIGR01955 RfaH transcriptional activator RfaH Back     alignment and domain information
>COG5164 SPT5 Transcription elongation factor [Transcription] Back     alignment and domain information
>COG0250 NusG Transcription antiterminator [Transcription] Back     alignment and domain information
>PRK04313 30S ribosomal protein S4e; Validated Back     alignment and domain information
>PTZ00223 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PLN00036 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PTZ00118 40S ribosomal protein S4; Provisional Back     alignment and domain information
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK08559 nusG transcription antitermination protein NusG; Validated Back     alignment and domain information
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal Back     alignment and domain information
>PRK04914 ATP-dependent helicase HepA; Validated Back     alignment and domain information
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion] Back     alignment and domain information
>PLN00045 photosystem I reaction center subunit IV; Provisional Back     alignment and domain information
>TIGR00739 yajC preprotein translocase, YajC subunit Back     alignment and domain information
>smart00743 Agenet Tudor-like domain present in plant sequences Back     alignment and domain information
>PRK05585 yajC preprotein translocase subunit YajC; Validated Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query296
2ckk_A127 KIN17; beta barrel, ribosomal protein, ribonucleop 99.97
2e70_A71 Transcription elongation factor SPT5; KOW motif, s 98.68
2do3_A69 Transcription elongation factor SPT5; KOW motif, s 97.03
2e6z_A59 Transcription elongation factor SPT5; KOW motif, s 96.71
1nz9_A58 Transcription antitermination protein NUSG; transc 96.53
3h8z_A128 FragIle X mental retardation syndrome-related Pro; 96.5
2jz2_A66 SSL0352 protein; SH3-like, synechocystis SP. PCC 6 96.42
1vq8_T120 50S ribosomal protein L24P; ribosome 50S, protein- 96.09
3j21_U121 50S ribosomal protein L24P; archaea, archaeal, KIN 95.94
2zjr_R115 50S ribosomal protein L24; ribosome, large ribosom 95.73
2e70_A71 Transcription elongation factor SPT5; KOW motif, s 95.53
3v2d_Y110 50S ribosomal protein L24; ribosome associated inh 95.49
3r8s_U102 50S ribosomal protein L24; protein biosynthesis, R 95.47
3iz5_Y150 60S ribosomal protein L26 (L24P); eukaryotic ribos 95.36
4a17_S135 RPL26, 60S ribosomal protein L21; eukaryotic ribos 95.35
3u5e_Y127 L33, YL33, 60S ribosomal protein L26-A; translatio 95.34
2zkr_t145 60S ribosomal protein L26; protein-RNA complex, 60 95.3
2ftc_N96 Mitochondrial ribosomal protein L24; mitochondrial 95.26
3p8b_B152 Transcription antitermination protein NUSG; transc 95.19
2qqr_A118 JMJC domain-containing histone demethylation prote 93.86
2jvv_A181 Transcription antitermination protein NUSG; transc 93.04
3bbo_W191 Ribosomal protein L24; large ribosomal subunit, sp 92.67
2do3_A69 Transcription elongation factor SPT5; KOW motif, s 91.87
2xdp_A123 Lysine-specific demethylase 4C; oxidoreductase, hi 89.98
2e6z_A59 Transcription elongation factor SPT5; KOW motif, s 86.97
2xhc_A352 Transcription antitermination protein NUSG; 2.45A 85.84
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 84.44
3qr8_A211 GPV, baseplate assembly protein V; beta-helix, OB- 84.44
1qp2_A70 Protein (PSAE protein); mainly beta, roll, pleckst 84.17
1m1h_A248 Transcription antitermination protein NUSG; transc 82.0
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 80.88
1nz9_A58 Transcription antitermination protein NUSG; transc 80.31
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens} Back     alignment and structure
Probab=99.97  E-value=2e-31  Score=223.43  Aligned_cols=108  Identities=18%  Similarity=0.334  Sum_probs=98.7

Q ss_pred             CcccCceEEEEecCCCCccccCCeEEEEEec-CCeEEEEeCCCCeeeeeeCCceeEcCCCCCCeEEEEeCCCCCceEEEE
Q psy13744        187 EWHTTDIEVRINENARDPEFRGQIGVIRHLG-SGVCSVYLAEEERTLSIEAHELEPVMPQPNDKVKVIVGEHKECTGVLL  265 (296)
Q Consensus       187 ~Wl~~dI~VkI~~~~~d~~yygqkGVVrsV~-~g~c~V~L~d~~~vv~V~q~~LEtViP~kGd~VkVI~Ge~RG~tG~Li  265 (296)
                      +||++||+|||+++..+..||++||||++|. +++|.|+|.+++++++|+|++||||+|++|++|+||+|+|||++|+|+
T Consensus        13 ~Wl~~~I~Vrii~k~~~~g~y~~KgvV~~V~~~~~c~V~l~~~g~~v~v~q~~LETViP~~g~~V~Iv~G~~rG~~g~L~   92 (127)
T 2ckk_A           13 YWLQPEIIVKIITKKLGEKYHKKKAIVKEVIDKYTAVVKMIDSGDKLKLDQTHLETVIPAPGKRILVLNGGYRGNEGTLE   92 (127)
T ss_dssp             CCCCTTBEEEECCSTTCGGGTTCEEEEEEEETTTEEEEEETTTCCEEEEEGGGEEECCCCTTCEEEECSSTTTTCEEEEE
T ss_pred             CcccCCeEEEEEEccCCCcccCceEEEEEecCCCeEEEEECCCCCEEEEchHHcEEecCCCCCEEEEEecccCCcEEEEE
Confidence            7999999999997655545999999999995 699999999999999999999999999999999999999999999999


Q ss_pred             EEeCC--CcEEEEcCC----CceeEeecchhhccC
Q psy13744        266 SVDNG--EGVVKLTEE----DDVKMIDVKFLCKYK  294 (296)
Q Consensus       266 sID~~--dgiVkld~~----~d~kil~~~~L~Kl~  294 (296)
                      +||.+  +++|+|+++    ..+++|+|++||||+
T Consensus        93 ~id~~~~~~~V~l~~~~~~~~~v~~l~~ddi~k~~  127 (127)
T 2ckk_A           93 SINEKTFSATIVIETGPLKGRRVEGIQYEDISKLA  127 (127)
T ss_dssp             EEEGGGTEEEEEECSSTTTTCEEEEEEGGGEEEBC
T ss_pred             EEeCCCcEEEEEEccCCCCCCEEEeeCHHHhhccC
Confidence            99988  789999863    357789999999985
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Back     alignment and structure
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 Back     alignment and structure
>3h8z_A FragIle X mental retardation syndrome-related Pro; tudor domains, FXR2, structura genomics, structural genomics consortium, SGC; 1.92A {Homo sapiens} PDB: 3o8v_A 3kuf_A 2bkd_N* Back     alignment and structure
>2jz2_A SSL0352 protein; SH3-like, synechocystis SP. PCC 6803, targe PSI, protein structure initiative, northeast structural GEN consortium, NESG; NMR {Synechocystis SP} PDB: 3c4s_A Back     alignment and structure
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Back     alignment and structure
>3j21_U 50S ribosomal protein L24P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V Back     alignment and structure
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ... Back     alignment and structure
>3r8s_U 50S ribosomal protein L24; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2j28_U* 3fik_U 3j19_U 2wwq_U 3oat_U* 3oas_U* 3ofd_U 3ofc_U 3ofr_U* 3ofz_U* 3og0_U 3ofq_U 3r8t_U 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U ... Back     alignment and structure
>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_S 4a1c_S 4a1e_S Back     alignment and structure
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 4b6a_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U Back     alignment and structure
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_N Back     alignment and structure
>3p8b_B Transcription antitermination protein NUSG; transcription elongation factor, RNA polymerase, transferase transcription complex; 1.80A {Pyrococcus furiosus} PDB: 3qqc_D Back     alignment and structure
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A* Back     alignment and structure
>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G Back     alignment and structure
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Back     alignment and structure
>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens} Back     alignment and structure
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga maritima} Back     alignment and structure
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>3qr8_A GPV, baseplate assembly protein V; beta-helix, OB-fold, phage baseplate, iron-binding, cell MEM piercing, tail spike, viral protein; HET: MSE; 2.03A {Enterobacteria phage P2} Back     alignment and structure
>1qp2_A Protein (PSAE protein); mainly beta, roll, pleckstrin topology, SH3-like, electron T; NMR {Nostoc SP} SCOP: b.34.4.2 PDB: 1qp3_A Back     alignment and structure
>1m1h_A Transcription antitermination protein NUSG; transcription termination, RNP motif, immunoglobulin fold, nucleic acid interaction; 1.95A {Aquifex aeolicus} SCOP: b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Back     alignment and structure
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 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 296
d1mkha_107 b.40.4.4 (A:) C-terminal domain of methionyl-tRNA 0.004
>d1mkha_ b.40.4.4 (A:) C-terminal domain of methionyl-tRNA synthetase, MetRS-CD {Archaeon Pyrococcus abyssi [TaxId: 29292]} Length = 107 Back     information, alignment and structure

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Myf domain
domain: C-terminal domain of methionyl-tRNA synthetase, MetRS-CD
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

 Score = 34.1 bits (78), Expect = 0.004
 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 10/72 (13%)

Query: 220 VCSVYLAEEERTLSIEAHELEP--------VMPQPNDKVKVIVGEHKECTGVLLSVDNGE 271
           V  V L +E RTL     +           V+   N + K + G   +  G+LL+ D+GE
Sbjct: 32  VVKVDLGDEVRTLVAGLKKYYKPEELLNRYVVVVANLEPKKLRGIGSQ--GMLLAADDGE 89

Query: 272 GVVKLTEEDDVK 283
            V  L  + +VK
Sbjct: 90  RVALLMPDKEVK 101

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query296
d2do3a162 Transcription elongation factor SPT5 {Human (Homo 96.82
d1nppa258 N-utilization substance G protein NusG, C-terminal 96.59
d1nz9a_58 N-utilization substance G protein NusG, C-terminal 96.4
d1vqot1119 Ribosomal proteins L24 (L24p) {Archaeon Haloarcula 96.32
d2zjrr1110 Ribosomal proteins L24 (L24p) {Deinococcus radiodu 95.67
d2gycs199 Ribosomal proteins L24 (L24p) {Escherichia coli [T 94.23
d2j01y1101 Ribosomal proteins L24 (L24p) {Thermus thermophilu 93.06
d2do3a162 Transcription elongation factor SPT5 {Human (Homo 92.01
d1u0la166 Probable GTPase EngC (YjeQ), N-terminal domain {Th 88.64
d1nxza172 Hypothetical protein HI0303 {Haemophilus influenza 83.69
d1vhka172 Hypothetical protein YqeU {Bacillus subtilis [TaxI 81.53
>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: SPT5 KOW domain-like
domain: Transcription elongation factor SPT5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.001  Score=47.64  Aligned_cols=40  Identities=25%  Similarity=0.375  Sum_probs=31.8

Q ss_pred             CCCCeEEEEeCCCCCceEEEEEEeCCCcEEEEcCC-CceeE
Q psy13744        245 QPNDKVKVIVGEHKECTGVLLSVDNGEGVVKLTEE-DDVKM  284 (296)
Q Consensus       245 ~kGd~VkVI~Ge~RG~tG~LisID~~dgiVkld~~-~d~ki  284 (296)
                      +.||+||||.|.|.|.+|.++.++++..+|=-|.. .++++
T Consensus        12 ~~GDhVkVi~G~~~g~tGlVV~v~~~~v~~~SD~t~~Ei~V   52 (62)
T d2do3a1          12 KMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKV   52 (62)
T ss_dssp             CTTCEEEESSSTTTTCEEEEEEECSSCEEEEESSSCSEEEE
T ss_pred             CCCCeEEEeccEEcCccEEEEEEeCCEEEEEeCCCCCEEEE
Confidence            45999999999999999999999877777644533 44554
>d1nppa2 b.34.5.4 (A:191-248) N-utilization substance G protein NusG, C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1nz9a_ b.34.5.4 (A:) N-utilization substance G protein NusG, C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
>d2zjrr1 b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d2gycs1 b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2j01y1 b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u0la1 b.40.4.5 (A:3-68) Probable GTPase EngC (YjeQ), N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1nxza1 b.122.1.2 (A:2-73) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1vhka1 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure