Citrus Sinensis ID: 017510

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
MEKEVMELCEAAKRRAETAASAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSLDNVDAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKRIKCLNCYQYWESTTALYGLLPV
cHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHcccEEEcccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccccHHHHHHHHcccccHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccEEccccccccccEEEEEEccccccEEEccccccccccccccccccc
cHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHccccHEHHHHccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHcccccHHHHHHccHHHHccHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEccccccccEEEEEEEEccccEEEEEccccccccccEcEcEEEcc
MEKEVMELCEAAKRRAETAASAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRhllpltkhprqkiQDTASELILSWRSLFLEQmkgdeengsfaiCGEIKSANVEIakgkrqitsdEFEQALDVEVVKVRrvdqkgaprskklvgsefivteetnsldnvdaeaireekpasavvpqKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVqdklngcdpiRVAITAESLMFEkwghsfgtYEVKYRSILFnlmdpenpdfRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKerasdrylpwkggylgpiyhstrymcgrcghkkttnhgndqnssakrikclncyQYWESTTalygllpv
MEKEVMELCEAAKRRAETAASAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLlpltkhprqkiqDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKgkrqitsdefeqaldvevvkvrrvdqkgaprskklvgsefivteetnsldnvdAEAIReekpasavvpqklvsMIKCNDYFRERIREKLYKALSkvsgevdeevqdklngcdPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEalikmsseemvsdgsrrLNQQIkkerasdrylpwkgGYLGPIYHSTRYMCGRCGHKKttnhgndqnssaKRIKCLNCYQYWESttalygllpv
MEKEVMELCeaakrraetaasaeGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSLDNVDAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKRIKCLNCYQYWESTTALYGLLPV
****************************AQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRR***************EFIV***********************VVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVK*******************************RYLPWKGGYLGPIYHSTRYMCGRCGHK*************KRIKCLNCYQYWESTTALYGLL**
*EKEVMELCE*********************IAALDQLHKSSITCQLLVSTQLVRHLLPL************SELILSWR************************************TSDEFEQAL**************************************DAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEM**********************************STRYMCGRCGHKKTTNHGNDQNSSAKRIKCLNCYQYWESTTALYGLLPV
MEKEVMELCEA**************LEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSLDNVDAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSS**********LNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKT*********SAKRIKCLNCYQYWESTTALYGLLPV
****VMELCEAAKRRAETAAS***ELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLE*********************************************************************************************PQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKRIKCLNCYQYWESTTALYGLLPV
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MEKEVMELCEAAKRRAETAASAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSLDNVDAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKRIKCLNCYQYWESTTALYGLLPV
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 ?
Query370 2.2.26 [Sep-21-2011]
Q15560299 Transcription elongation yes no 0.424 0.525 0.285 1e-11
Q148K0300 Transcription elongation yes no 0.424 0.523 0.291 2e-10
P23881347 Transcription elongation yes no 0.424 0.452 0.28 1e-09
O75764348 Transcription elongation no no 0.470 0.5 0.272 3e-09
Q2KI09349 Transcription elongation no no 0.424 0.449 0.274 5e-09
Q29RL9301 Transcription elongation no no 0.359 0.441 0.256 6e-09
P20232313 Transcription elongation yes no 0.418 0.495 0.289 7e-09
Q4KLL0301 Transcription elongation no no 0.359 0.441 0.256 7e-09
P23193301 Transcription elongation no no 0.359 0.441 0.256 7e-09
P10711301 Transcription elongation no no 0.359 0.441 0.256 7e-09
>sp|Q15560|TCEA2_HUMAN Transcription elongation factor A protein 2 OS=Homo sapiens GN=TCEA2 PE=1 SV=1 Back     alignment and function desciption
 Score = 70.9 bits (172), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 77/175 (44%), Gaps = 18/175 (10%)

Query: 190 DYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVK 249
           D  R + RE L  AL      V         G D  R++   E  +F   G++   Y+ +
Sbjct: 136 DAVRNKCREMLTAALQTDHDHV-------AIGADCERLSAQIEECIFRDVGNTDMKYKNR 188

Query: 250 YRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYL 309
            RS + NL D +NPD RR VL G + P+ +  M+SEEM SD  + + + + KE   +  +
Sbjct: 189 VRSRISNLKDAKNPDLRRNVLCGAITPQQIAVMTSEEMASDELKEIRKAMTKEAIREHQM 248

Query: 310 PWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKR-----IKCLNCYQYWE 359
              GG       +  + CG+C  KK   +   Q  S+       + C  C   W+
Sbjct: 249 ARTGG-----TQTDLFTCGKC-RKKNCTYTQVQTRSSDEPMTTFVVCNECGNRWK 297
Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.
Homo sapiens (taxid: 9606)
>sp|Q148K0|TCEA2_BOVIN Transcription elongation factor A protein 2 OS=Bos taurus GN=TCEA2 PE=2 SV=1 Back     alignment and function description
>sp|P23881|TCEA3_MOUSE Transcription elongation factor A protein 3 OS=Mus musculus GN=Tcea3 PE=1 SV=3 Back     alignment and function description
>sp|O75764|TCEA3_HUMAN Transcription elongation factor A protein 3 OS=Homo sapiens GN=TCEA3 PE=2 SV=2 Back     alignment and function description
>sp|Q2KI09|TCEA3_BOVIN Transcription elongation factor A protein 3 OS=Bos taurus GN=TCEA3 PE=2 SV=1 Back     alignment and function description
>sp|Q29RL9|TCEA1_BOVIN Transcription elongation factor A protein 1 OS=Bos taurus GN=TCEA1 PE=2 SV=1 Back     alignment and function description
>sp|P20232|TFS2_DROME Transcription elongation factor S-II OS=Drosophila melanogaster GN=TfIIS PE=2 SV=1 Back     alignment and function description
>sp|Q4KLL0|TCEA1_RAT Transcription elongation factor A protein 1 OS=Rattus norvegicus GN=Tcea1 PE=2 SV=1 Back     alignment and function description
>sp|P23193|TCEA1_HUMAN Transcription elongation factor A protein 1 OS=Homo sapiens GN=TCEA1 PE=1 SV=2 Back     alignment and function description
>sp|P10711|TCEA1_MOUSE Transcription elongation factor A protein 1 OS=Mus musculus GN=Tcea1 PE=1 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 ?
Query370
449441244369 PREDICTED: transcription elongation fact 0.945 0.948 0.430 3e-66
356509090368 PREDICTED: putative transcription elonga 0.937 0.942 0.423 3e-62
255637690368 unknown [Glycine max] 0.937 0.942 0.420 8e-62
356516223367 PREDICTED: transcription elongation fact 0.937 0.945 0.424 5e-61
225439709367 PREDICTED: transcription elongation fact 0.940 0.948 0.398 7e-61
224087871352 predicted protein [Populus trichocarpa] 0.905 0.951 0.376 2e-58
255559741330 transcription elongation factor s-II, pu 0.848 0.951 0.388 2e-58
388514187369 unknown [Medicago truncatula] 0.913 0.915 0.393 5e-58
224139382334 predicted protein [Populus trichocarpa] 0.872 0.967 0.366 9e-56
297735532322 unnamed protein product [Vitis vinifera] 0.837 0.962 0.384 3e-55
>gi|449441244|ref|XP_004138392.1| PREDICTED: transcription elongation factor A protein 3-like [Cucumis sativus] Back     alignment and taxonomy information
 Score =  258 bits (659), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 162/376 (43%), Positives = 234/376 (62%), Gaps = 26/376 (6%)

Query: 1   MEKEVMELCEAAKRRAETAA--SAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLL 58
           ME E++EL EAAK+ A+ AA  S +G  EE++C+ AL QL K  +T Q+LVSTQ+ + L 
Sbjct: 1   MENELVELFEAAKKAADAAAAPSNDGGAEESRCLDALRQLKKFPVTYQILVSTQVGKRLR 60

Query: 59  PLTKHPRQKIQDTASELILSWRSLFLEQMKGDEENG--SFAICGEIKSANVEIAKGKRQI 116
            LTKHP++KIQ+ AS+LI  W+ + +++   +++NG  S     +I S + E  K ++  
Sbjct: 61  HLTKHPKKKIQEHASDLIEMWKEIVIKETNKNKKNGNASSKDSPKIGSPSAESVKVEKFQ 120

Query: 117 TSDEFEQALDVE-VVKVRRVDQKGAPRSKKLVGSEFIVTE-------ETNSLDNVDAEAI 168
            S     ++ VE V KV + D+ GA  S K   SE +V+E       +T+S+  V+    
Sbjct: 121 KS----SSMKVERVSKVEQFDRNGATSSVKYSKSESVVSERNSVKVEKTDSMVKVERVVK 176

Query: 169 REEKPAS-AVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRV 227
            E+KP+S A  P KL SMIK  D  R++IRE L++A SKV GE DEE  D++N  DPIRV
Sbjct: 177 EEKKPSSGAAAPPKLTSMIKSKDAARDKIRELLFEAFSKVPGEADEEFMDEVNASDPIRV 236

Query: 228 AITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEM 287
           A++ ES+MFE WG S G  + KYRSI+FNL DP+NPDFRRKVLLG +KPE +I MS+ +M
Sbjct: 237 AVSVESVMFENWGGSTGAQKAKYRSIMFNLKDPKNPDFRRKVLLGLIKPERMINMSTADM 296

Query: 288 VSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSS-- 345
            SD  +R N++I ++   D     +GG   P   + ++ CGRCG +KTT +     S+  
Sbjct: 297 ASDQRKRENEEIAQKALFDCE---RGG--APKATTDQFKCGRCGQRKTTYYQLQTRSADE 351

Query: 346 --AKRIKCLNCYQYWE 359
                + C+NC  +W+
Sbjct: 352 PMTTFVTCVNCNNHWK 367

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356509090|ref|XP_003523285.1| PREDICTED: putative transcription elongation factor S-II-like [Glycine max] Back     alignment and taxonomy information
>gi|255637690|gb|ACU19168.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356516223|ref|XP_003526795.1| PREDICTED: transcription elongation factor A protein 2-like [Glycine max] Back     alignment and taxonomy information
>gi|225439709|ref|XP_002272768.1| PREDICTED: transcription elongation factor A protein 3 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224087871|ref|XP_002308256.1| predicted protein [Populus trichocarpa] gi|222854232|gb|EEE91779.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255559741|ref|XP_002520890.1| transcription elongation factor s-II, putative [Ricinus communis] gi|223540021|gb|EEF41599.1| transcription elongation factor s-II, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|388514187|gb|AFK45155.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|224139382|ref|XP_002323085.1| predicted protein [Populus trichocarpa] gi|222867715|gb|EEF04846.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297735532|emb|CBI18026.3| unnamed protein product [Vitis vinifera] 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 ?
Query370
TAIR|locus:2064195378 TFIIS "transcript elongation f 0.872 0.854 0.355 1.8e-48
TAIR|locus:2124097266 AT4G18720 [Arabidopsis thalian 0.416 0.578 0.398 4e-26
TAIR|locus:2052351737 AT2G42730 [Arabidopsis thalian 0.329 0.165 0.420 2.3e-20
UNIPROTKB|Q2KI09349 TCEA3 "Transcription elongatio 0.848 0.899 0.251 7e-14
UNIPROTKB|F1N0P7348 TCEA3 "Transcription elongatio 0.845 0.899 0.248 2.8e-13
UNIPROTKB|O75764348 TCEA3 "Transcription elongatio 0.843 0.896 0.245 2.8e-13
TAIR|locus:504954948233 AT5G42325 [Arabidopsis thalian 0.316 0.502 0.381 1.2e-12
UNIPROTKB|F1NP37280 TCEA1 "Uncharacterized protein 0.559 0.739 0.253 5.3e-12
ZFIN|ZDB-GENE-040426-985301 tcea2 "transcription elongatio 0.624 0.767 0.258 6.7e-12
ZFIN|ZDB-GENE-030131-8049309 tcea1 "transcription elongatio 0.640 0.766 0.246 1e-11
TAIR|locus:2064195 TFIIS "transcript elongation factor IIS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 506 (183.2 bits), Expect = 1.8e-48, P = 1.8e-48
 Identities = 127/357 (35%), Positives = 198/357 (55%)

Query:    27 EEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQ 86
             E +QCI AL QL K  +T   LV+TQ+ + L  L KHP + I+  A++L+  W+ + +E+
Sbjct:    30 EVSQCIDALKQLKKFPVTYDTLVATQVGKKLRSLAKHPVEDIKSVATDLLEIWKKVVIEE 89

Query:    87 M-KGDEENGSFAICGEIKSANVEIAKGKRQ--ITSDEFEQALDVEVVKVRRV--DQK--- 138
               K  +  G+   C E K   +++ K      +   + ++    + +KV R   D K   
Sbjct:    90 TAKAKKTEGTNG-CKEAKVNKMDVEKPSNPAPVKVQKLQRGDSAKSIKVERKEPDNKVVT 148

Query:   139 GAPRSKKLVGSEFIVTEETNSLDNVDAEAIREEK-----------PASAV-VPQKLVSMI 186
             G    +K+   +  VT  T  +D    +A+++EK           PA A   P KL +M+
Sbjct:   149 GVKIERKV--PDIKVTNGTK-ID-YRGQAVKDEKVSKDNQSSMKAPAKAANAPPKLTAML 204

Query:   187 KCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTY 246
             KCND  R++IRE L +AL +V+GE D+  ++ +N  DP+RVA++ ESLMFEK G S G  
Sbjct:   205 KCNDPVRDKIRELLVEALCRVAGEADDYERESVNASDPLRVAVSVESLMFEKLGRSTGAQ 264

Query:   247 EVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASD 306
             ++KYRSI+FNL D  NPD RR+VL G + PE LI +S+E+M SD  ++ N QIK++   D
Sbjct:   265 KLKYRSIMFNLRDSNNPDLRRRVLTGEISPEKLITLSAEDMASDKRKQENNQIKEKALFD 324

Query:   307 RYLPWKGGYLGPIYHSTRYMCGRCGHKKTTNHGNDQNSSAKR----IKCLNCYQYWE 359
                  +G  L     + ++ CGRCG +K T +     S+ +     + C+NC  +W+
Sbjct:   325 CE---RG--LAAKASTDQFKCGRCGQRKCTYYQMQTRSADEPMTTYVTCVNCDNHWK 376
GO:0003674 "molecular_function" evidence=ND
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0003746 "translation elongation factor activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;ISS;IDA
GO:0006351 "transcription, DNA-dependent" evidence=IEA
GO:0006354 "DNA-dependent transcription, elongation" evidence=IEA;ISS
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS
GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0032784 "regulation of DNA-dependent transcription, elongation" evidence=IEA
GO:0009910 "negative regulation of flower development" evidence=IMP
GO:0010162 "seed dormancy process" evidence=RCA;IMP
GO:0034243 "regulation of transcription elongation from RNA polymerase II promoter" evidence=IMP
GO:0005829 "cytosol" evidence=RCA
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
GO:0007062 "sister chromatid cohesion" evidence=RCA
GO:0009640 "photomorphogenesis" evidence=RCA
GO:0009793 "embryo development ending in seed dormancy" evidence=RCA
GO:0009845 "seed germination" evidence=IMP;RCA
GO:0009880 "embryonic pattern specification" evidence=RCA
GO:0009909 "regulation of flower development" evidence=RCA
GO:0009933 "meristem structural organization" evidence=RCA
GO:0010072 "primary shoot apical meristem specification" evidence=RCA
GO:0010182 "sugar mediated signaling pathway" evidence=RCA
GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA
GO:0010431 "seed maturation" evidence=RCA
GO:0010564 "regulation of cell cycle process" evidence=RCA
GO:0016567 "protein ubiquitination" evidence=RCA
GO:0019915 "lipid storage" evidence=RCA
GO:0045595 "regulation of cell differentiation" evidence=RCA
GO:0048366 "leaf development" evidence=RCA
GO:0048825 "cotyledon development" evidence=RCA
GO:0050826 "response to freezing" evidence=RCA
GO:0051301 "cell division" evidence=RCA
GO:0009739 "response to gibberellin stimulus" evidence=IMP
TAIR|locus:2124097 AT4G18720 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2052351 AT2G42730 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q2KI09 TCEA3 "Transcription elongation factor A protein 3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1N0P7 TCEA3 "Transcription elongation factor A protein 3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|O75764 TCEA3 "Transcription elongation factor A protein 3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
TAIR|locus:504954948 AT5G42325 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1NP37 TCEA1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-985 tcea2 "transcription elongation factor A (SII), 2" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-8049 tcea1 "transcription elongation factor A (SII), 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

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

Your Input:
GSVIVG00037504001
SubName- Full=Chromosome chr8 scaffold_88, whole genome shotgun sequence; (367 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query370
TIGR01385299 TIGR01385, TFSII, transcription elongation factor 8e-35
pfam07500115 pfam07500, TFIIS_M, Transcription factor S-II (TFI 5e-25
smart00510102 smart00510, TFS2M, Domain in the central regions o 2e-24
cd0018376 cd00183, TFIIS_I, N-terminal domain (domain I) of 1e-07
smart0050975 smart00509, TFS2N, Domain in the N-terminus of tra 2e-06
>gnl|CDD|233390 TIGR01385, TFSII, transcription elongation factor S-II Back     alignment and domain information 
 Score =  129 bits (326), Expect = 8e-35
 Identities = 84/337 (24%), Positives = 121/337 (35%), Gaps = 64/337 (18%)

Query: 27  EEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQ 86
              QC+  L QL +   T +LL  T++   +  L KHP + I   A ++I SW+ +    
Sbjct: 19  NVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKKV---- 74

Query: 87  MKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKL 146
                                                     V K +     G P  K  
Sbjct: 75  ------------------------------------------VDKNKSDHPGGNPEDKTT 92

Query: 147 VGSEFIVTEETNSLDNVDAEAIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSK 206
           VG      ++     +   E  +    +        V     ND  R++ RE LY AL+K
Sbjct: 93  VGESVNSVKQEAKSQSDKIEQPKYVSSSPRNAKNDFVPTAVTNDKVRDKCRELLYDALAK 152

Query: 207 VSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVKYRSILFNLMDPENPDFR 266
            S              DP   AI  E L F   G +   Y+ +YRSI  NL D  NPD R
Sbjct: 153 DSDHPP-------QSIDPEAKAIQIEELKFNNLGTTEAAYKARYRSIYSNLRDKNNPDLR 205

Query: 267 RKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYM 326
             VL G + PE L  M++EEM S   ++  ++I KE   +         +     +  + 
Sbjct: 206 HNVLTGEITPEKLATMTAEEMASAELKQEREEITKENLFEAQGAKIQKAV-----TDLFT 260

Query: 327 CGRCGHKKTTNHGNDQNSSAKR-----IKCLNCYQYW 358
           CG+C  KK T +   Q  SA       + C  C   W
Sbjct: 261 CGKCKQKKCT-YYQLQTRSADEPMTTFVTCEECGNRW 296

This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end. Length = 299
>gnl|CDD|219433 pfam07500, TFIIS_M, Transcription factor S-II (TFIIS), central domain Back     alignment and domain information
>gnl|CDD|128786 smart00510, TFS2M, Domain in the central regions of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information
>gnl|CDD|238107 cd00183, TFIIS_I, N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme Back     alignment and domain information
>gnl|CDD|197766 smart00509, TFS2N, Domain in the N-terminus of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 370
TIGR01385299 TFSII transcription elongation factor S-II. This m 100.0
KOG1105296 consensus Transcription elongation factor TFIIS/Co 100.0
smart00510102 TFS2M Domain in the central regions of transcripti 99.95
PF07500115 TFIIS_M: Transcription factor S-II (TFIIS), centra 99.94
smart0050975 TFS2N Domain in the N-terminus of transcription el 99.7
cd0018376 TFIIS_I N-terminal domain (domain I) of transcript 99.58
smart0044040 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo 99.37
PF0871153 Med26: TFIIS helical bundle-like domain; InterPro: 99.36
PF0109639 TFIIS_C: Transcription factor S-II (TFIIS); InterP 99.35
KOG1634 778 consensus Predicted transcription factor DATF1, co 99.34
COG1594113 RPB9 DNA-directed RNA polymerase, subunit M/Transc 99.2
KOG2906105 consensus RNA polymerase III subunit C11 [Transcri 99.19
PHA02998195 RNA polymerase subunit; Provisional 99.06
TIGR01384104 TFS_arch transcription factor S, archaeal. There h 99.05
KOG2691113 consensus RNA polymerase II subunit 9 [Transcripti 98.7
KOG2907116 consensus RNA polymerase I transcription factor TF 98.58
PF11467106 LEDGF: Lens epithelium-derived growth factor (LEDG 96.73
KOG2821433 consensus RNA polymerase II transcription elongati 96.69
KOG1793417 consensus Uncharacterized conserved protein [Funct 95.63
PF0985564 DUF2082: Nucleic-acid-binding protein containing Z 95.12
PF0827430 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01 94.9
COG5139397 Uncharacterized conserved protein [Function unknow 94.62
COG347868 Predicted nucleic-acid-binding protein containing 94.19
TIGR00686109 phnA alkylphosphonate utilization operon protein P 93.66
PF1371937 zinc_ribbon_5: zinc-ribbon domain 93.07
COG4332 203 Uncharacterized protein conserved in bacteria [Fun 92.48
TIGR0209838 MJ0042_CXXC MJ0042 family finger-like domain. This 92.41
PRK10220111 hypothetical protein; Provisional 92.15
PF1371736 zinc_ribbon_4: zinc-ribbon domain 92.11
PRK0967872 DNA-binding transcriptional regulator; Provisional 91.82
KOG350762 consensus DNA-directed RNA polymerase, subunit RPB 90.51
PHA0062659 hypothetical protein 90.46
PF06044 254 DRP: Dam-replacing family; InterPro: IPR010324 Dam 89.9
TIGR0244359 conserved hypothetical metal-binding protein. Memb 89.66
PF0460647 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: I 89.35
PF0512981 Elf1: Transcription elongation factor Elf1 like; I 89.09
PF1178136 RRN7: RNA polymerase I-specific transcription init 88.62
smart0065944 RPOLCX RNA polymerase subunit CX. present in RNA p 88.54
PF0360432 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa 88.28
COG4888104 Uncharacterized Zn ribbon-containing protein [Gene 88.26
PF14353128 CpXC: CpXC protein 87.66
PLN029761713 amine oxidase 87.04
PF0827143 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013 86.91
PF0952671 DUF2387: Probable metal-binding protein (DUF2387); 86.7
PF1276046 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int 86.64
COG205167 RPS27A Ribosomal protein S27E [Translation, riboso 84.01
KOG1886464 consensus BAH domain proteins [Transcription] 84.0
PF1435461 Lar_restr_allev: Restriction alleviation protein L 81.66
smart0066152 RPOL9 RNA polymerase subunit 9. 80.77
>TIGR01385 TFSII transcription elongation factor S-II Back     alignment and domain information 
Probab=100.00  E-value=1.1e-65  Score=497.13  Aligned_cols=292  Identities=29%  Similarity=0.405  Sum_probs=222.0

Q ss_pred             HHHHHHHHHHHHHHhhcCcccHHHHHHHHHHhhcCCCCHhhhhccCceeecccccCCCCHHHHHHHHHHHHHHHHHHHhh
Q 017510            7 ELCEAAKRRAETAASAEGELEEAQCIAALDQLHKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWRSLFLEQ   86 (370)
Q Consensus         7 el~~~a~k~~~~a~~~~~~~~~~~~l~~L~~L~~~~it~e~L~~T~IG~~V~~Lrkh~~~~I~~~Ak~Li~~WK~~v~~~   86 (370)
                      |+...++ ++++++..  + ++++||++|++|+.++||.++|++|+||++||+||||++++|+.+|+.||++||++|..+
T Consensus         3 ei~~~~k-~L~k~~~~--~-~~~~~l~~L~~L~~~~~t~~lL~~T~IG~~Vn~lrkh~~~~I~~lAk~li~~WK~~v~~~   78 (299)
T TIGR01385         3 EVASHAK-ALDKNKSS--K-NVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKKVVDKN   78 (299)
T ss_pred             HHHHHHH-HhhhhccC--C-CHHHHHHHHHHHhcCCCcHHHHhhCchhHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhhh
Confidence            3444444 55665442  2 567899999999999999999999999999999999999999999999999999999876


Q ss_pred             cCCCCCCCCcccccccccchhhhhcccCCCCchhhhhhhhhhHhHhhhcCCCCCCCcccccCcccccccccccCCcchhh
Q 017510           87 MKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSLDNVDAE  166 (370)
Q Consensus        87 ~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~  166 (370)
                      +...  ....+..  .....++.++.+.       +..++            +.+.                       +
T Consensus        79 k~~~--~~~~~~~--~~~~~~~~~~~~~-------~~~~~------------~~~~-----------------------~  112 (299)
T TIGR01385        79 KSDH--PGGNPED--KTTVGESVNSVKQ-------EAKSQ------------SDKI-----------------------E  112 (299)
T ss_pred             cccC--ccccccc--ccccCCCCCCCCc-------cccCC------------cccc-----------------------c
Confidence            3321  1100000  0000000000000       00000            0000                       0


Q ss_pred             hhhccCCCCcCCCcccccccCCChHHHHHHHHHHHHHHhhhcCCCchhhhhhcCCCChHHHHHHHHHHHHHhhCCCchhh
Q 017510          167 AIREEKPASAVVPQKLVSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTY  246 (370)
Q Consensus       167 ~~~~~~~~~~~~~p~~~~~~~t~d~vR~k~r~lL~~aL~~~~~~~~~~~~~~~~~~~~~~~A~~IE~~if~~~~~~~~~Y  246 (370)
                      ......+...+.++..+..+.++|++|++||+|||+||.....+++       ..+++..+|.+||.+||..|+.+++.|
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~t~d~~Rdk~r~~L~~aL~~~~~~~~-------~~~~~~~lA~~iE~~~f~~~~~~~~~Y  185 (299)
T TIGR01385       113 QPKYVSSSPRNAKNDFVPTAVTNDKVRDKCRELLYDALAKDSDHPP-------QSIDPEAKAIQIEELKFNNLGTTEAAY  185 (299)
T ss_pred             CCCCCCCcccccCCCCCCCccCCcHHHHHHHHHHHHHHhhcCCCCc-------cccCHHHHHHHHHHHHHHHcCCCcHHH
Confidence            0000000000112222334589999999999999999997543322       234677899999999999999888899


Q ss_pred             hHHHHhHHhhcCCCCChHhhhchhcCCCChhhhcCCChhhcCChHHHHHHHHHHHHHhhcccCcccCCCCCCcccccccc
Q 017510          247 EVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYLGPIYHSTRYM  326 (370)
Q Consensus       247 k~k~Rsl~~NLKd~kNp~Lr~~vl~G~isp~~lv~Ms~eEmas~e~k~~r~~~~~e~l~~~~l~~~~~~~~~~~~t~~~~  326 (370)
                      +++||||+|||||++||+||++||+|+|+|++||.|+++||||+++|++++++.+++|+++|+++..+     +.|++|+
T Consensus       186 k~k~Rsl~~NLKd~kNp~Lr~~vl~G~i~p~~lv~Ms~eEmas~e~k~~~e~~~ke~l~~~~~~~~~~-----~~t~~~~  260 (299)
T TIGR01385       186 KARYRSIYSNLRDKNNPDLRHNVLTGEITPEKLATMTAEEMASAELKQEREEITKENLFEAQGAKIQK-----AVTDLFT  260 (299)
T ss_pred             HHHHHHHHHHccCCCCHHHHHHHHcCCCCHHHHhcCCHHHcCCHHHHHHHHHHHHHHHHHHHhhhhhc-----CCccccc
Confidence            99999999999999999999999999999999999999999999999999999999999998776544     8999999


Q ss_pred             ccCCCCcceEEEeeccccCCC-----ceeccCCCCcceeh
Q 017510          327 CGRCGHKKTTNHGNDQNSSAK-----RIKCLNCYQYWEST  361 (370)
Q Consensus       327 C~~C~~~~~~~~q~~Q~RsaD-----f~~C~~Cg~~w~~~  361 (370)
                      |++||+++|+|+|+ ||||||     ||+|.+|||+|+||
T Consensus       261 C~~C~~~~~~~~q~-QtrsaDEpmT~f~~C~~Cg~~w~fc  299 (299)
T TIGR01385       261 CGKCKQKKCTYYQL-QTRSADEPMTTFVTCEECGNRWKFC  299 (299)
T ss_pred             CCCCCCccceEEEe-cccCCCCCCeEEEEcCCCCCeeeeC
Confidence            99999999999999 999999     99999999999999

This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription] Back     alignment and domain information
>smart00510 TFS2M Domain in the central regions of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information
>PF07500 TFIIS_M: Transcription factor S-II (TFIIS), central domain; InterPro: IPR003618 Transcription factor S-II (TFIIS) is a eukaryotic protein which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites Back     alignment and domain information
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information
>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme Back     alignment and domain information
>smart00440 ZnF_C2C2 C2C2 Zinc finger Back     alignment and domain information
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription Back     alignment and domain information
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>KOG1634 consensus Predicted transcription factor DATF1, contains PHD and TFS2M domains [Transcription] Back     alignment and domain information
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription] Back     alignment and domain information
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription] Back     alignment and domain information
>PHA02998 RNA polymerase subunit; Provisional Back     alignment and domain information
>TIGR01384 TFS_arch transcription factor S, archaeal Back     alignment and domain information
>KOG2691 consensus RNA polymerase II subunit 9 [Transcription] Back     alignment and domain information
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12 Back     alignment and domain information
>PF11467 LEDGF: Lens epithelium-derived growth factor (LEDGF) ; InterPro: IPR021567 LEDGF is a chromatin-associated protein that protects cells from stress-induced apoptosis Back     alignment and domain information
>KOG2821 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin A [Transcription] Back     alignment and domain information
>KOG1793 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins Back     alignment and domain information
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues Back     alignment and domain information
>COG5139 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only] Back     alignment and domain information
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA Back     alignment and domain information
>PF13719 zinc_ribbon_5: zinc-ribbon domain Back     alignment and domain information
>COG4332 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain Back     alignment and domain information
>PRK10220 hypothetical protein; Provisional Back     alignment and domain information
>PF13717 zinc_ribbon_4: zinc-ribbon domain Back     alignment and domain information
>PRK09678 DNA-binding transcriptional regulator; Provisional Back     alignment and domain information
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7 Back     alignment and domain information
>PHA00626 hypothetical protein Back     alignment and domain information
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements Back     alignment and domain information
>TIGR02443 conserved hypothetical metal-binding protein Back     alignment and domain information
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr Back     alignment and domain information
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines Back     alignment and domain information
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[] Back     alignment and domain information
>smart00659 RPOLCX RNA polymerase subunit CX Back     alignment and domain information
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates Back     alignment and domain information
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only] Back     alignment and domain information
>PF14353 CpXC: CpXC protein Back     alignment and domain information
>PLN02976 amine oxidase Back     alignment and domain information
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>PF09526 DUF2387: Probable metal-binding protein (DUF2387); InterPro: IPR012658 Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N terminus and a probable metal-binding motif CPXCX(18)CXXC Back     alignment and domain information
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc Back     alignment and domain information
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1886 consensus BAH domain proteins [Transcription] Back     alignment and domain information
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar Back     alignment and domain information
>smart00661 RPOL9 RNA polymerase subunit 9 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 ?
Query370
2lw4_A113 Solution Nmr Structure Of Human Transcription Elong 1e-09
2dme_A120 Solution Structure Of The Tfiis Domain Ii Of Human 3e-08
3ndq_A108 Structure Of Human Tfiis Domain Ii Length = 108 3e-05
1pqv_S309 Rna Polymerase Ii-Tfiis Complex Length = 309 1e-04
3po3_S178 Arrested Rna Polymerase Ii Reactivation Intermediat 2e-04
3gtm_S173 Co-Complex Of Backtracked Rna Polymerase Ii With Tf 3e-04
1y1v_S179 Refined Rna Polymerase Ii-tfiis Complex Length = 17 3e-04
>pdb|2LW4|A Chain A, Solution Nmr Structure Of Human Transcription Elongation Factor A Protein 2, Central Domain, Northeast Structural Genomics Consortium (Nesg) Target Hr8682b Length = 113 Back     alignment and structure 
Iteration: 1

 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 36/101 (35%), Positives = 50/101 (49%), Gaps = 7/101 (6%)
Query: 190 DYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEVK 249
           D  R + RE L  AL      V         G D  R++   E  +F   G++   Y+ +
Sbjct: 10  DAVRNKCREMLTAALQTDHDHV-------AIGADCERLSAQIEECIFRDVGNTDMKYKNR 62
Query: 250 YRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSD 290
            RS + NL D +NPD RR VL G + P+ +  M+SEEM SD
Sbjct: 63  VRSRISNLKDAKNPDLRRNVLCGAITPQQIAVMTSEEMASD 103
>pdb|2DME|A Chain A, Solution Structure Of The Tfiis Domain Ii Of Human Phd Finger Protein 3 Length = 120 Back     alignment and structure
>pdb|3NDQ|A Chain A, Structure Of Human Tfiis Domain Ii Length = 108 Back     alignment and structure
>pdb|1PQV|S Chain S, Rna Polymerase Ii-Tfiis Complex Length = 309 Back     alignment and structure
>pdb|3PO3|S Chain S, Arrested Rna Polymerase Ii Reactivation Intermediate Length = 178 Back     alignment and structure
>pdb|3GTM|S Chain S, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis Length = 173 Back     alignment and structure
>pdb|1Y1V|S Chain S, Refined Rna Polymerase Ii-tfiis Complex Length = 179 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 ?
Query370
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 2e-23
3ndq_A108 Transcription elongation factor A protein 1; helix 2e-23
1pqv_S309 STP-alpha, transcription elongation factor S-II, D 3e-22
3po3_S178 Transcription elongation factor S-II; RNA polymera 4e-22
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
1wjt_A103 Transcription elongation factor S-II protein 3; fo 3e-04
>2dme_A PHD finger protein 3; PHF3, TFS2M, glioblastoma multiforme, brain tumor, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 120 Back     alignment and structure
 Score = 93.1 bits (231), Expect = 2e-23
 Identities = 34/114 (29%), Positives = 54/114 (47%), Gaps = 4/114 (3%)

Query: 189 NDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHSFGTYEV 248
            D  R+ +R  L   L K   + + +    +      +VA   E  +F  +  +   Y+ 
Sbjct: 9   ADQIRQSVRHSLKDILMKRLTDSNLK----VPEEKAAKVATKIEKELFSFFRDTDAKYKN 64

Query: 249 KYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKE 302
           KYRS++FNL DP+N    +KVL G V P+ LI+MS EE+ S       ++    
Sbjct: 65  KYRSLMFNLKDPKNNILFKKVLKGEVTPDHLIRMSPEELASKELAAWRRRSGPS 118
>3ndq_A Transcription elongation factor A protein 1; helix bundle; 1.93A {Homo sapiens} Length = 108 Back     alignment and structure
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A Length = 309 Back     alignment and structure
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A Length = 178 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1wjt_A Transcription elongation factor S-II protein 3; four-helix bundle, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.48.3.1 Length = 103 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query370
1pqv_S309 STP-alpha, transcription elongation factor S-II, D 100.0
3po3_S178 Transcription elongation factor S-II; RNA polymera 100.0
2lw4_A113 Transcription elongation factor A protein 2; struc 99.96
3ndq_A108 Transcription elongation factor A protein 1; helix 99.96
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 99.95
1wjt_A103 Transcription elongation factor S-II protein 3; fo 99.73
1tfi_A50 Transcriptional elongation factor SII; transcripti 99.59
1qyp_A57 RNA polymerase II; transcription, RPB9, Zn ribbon, 99.21
3h0g_I113 DNA-directed RNA polymerases I, II, and III subuni 99.1
1twf_I122 B12.6, DNA-directed RNA polymerase II 14.2 kDa pol 99.05
3qt1_I133 DNA-directed RNA polymerases I, II, and III subun; 98.93
2xpp_A145 IWS1, ECU08_0440; transcription, elongation, histo 97.61
3nfq_A170 Transcription factor IWS1; SPN1, RNA polymerase II 97.39
2b4j_C98 PC4 and SFRS1 interacting protein; HIV, integratio 96.94
1z9e_A127 PC4 and SFRS1 interacting protein 2; heat repeat-l 96.78
2akl_A138 PHNA-like protein PA0128; two domains, Zn binding 92.51
1wii_A85 Hypothetical UPF0222 protein MGC4549; domain of un 89.52
1k81_A36 EIF-2-beta, probable translation initiation factor 89.2
4esj_A 257 Type-2 restriction enzyme DPNI; restriction endonu 88.71
1vq8_Z83 50S ribosomal protein L37AE; ribosome 50S, protein 81.19
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A Back     alignment and structure
Probab=100.00  E-value=3.5e-62  Score=475.68  Aligned_cols=297  Identities=19%  Similarity=0.268  Sum_probs=222.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhcCcccHHHHHHHHHHh-hcCCCCHhhhhccCceeecccccCCCCHHHHHHHHHHHHHHH
Q 017510            2 EKEVMELCEAAKRRAETAASAEGELEEAQCIAALDQL-HKSSITCQLLVSTQLVRHLLPLTKHPRQKIQDTASELILSWR   80 (370)
Q Consensus         2 e~e~~el~~~a~k~~~~a~~~~~~~~~~~~l~~L~~L-~~~~it~e~L~~T~IG~~V~~Lrkh~~~~I~~~Ak~Li~~WK   80 (370)
                      |+||+++++.+.+    .   +.  ..+.++++|++| +.++||+++|++|+||++||+||||++++|+.+|+.||++||
T Consensus         3 ~~el~~~~~~L~k----~---~~--~~~~~l~~L~~L~~~~~it~~~L~~T~IG~~Vn~lrkh~~~~v~~~Ak~Li~~WK   73 (309)
T 1pqv_S            3 SKEVLVHVKNLEK----N---KS--NDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWK   73 (309)
T ss_pred             HHHHHHHHHHHhc----c---CC--CHHHHHHHHHHHHhcCCCCHHHHHhCChhHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            6789998887766    1   11  357899999999 999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCCCCcccccccccchhhhhcccCCCCchhhhhhhhhhHhHhhhcCCCCCCCcccccCcccccccccccC
Q 017510           81 SLFLEQMKGDEENGSFAICGEIKSANVEIAKGKRQITSDEFEQALDVEVVKVRRVDQKGAPRSKKLVGSEFIVTEETNSL  160 (370)
Q Consensus        81 ~~v~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~  160 (370)
                      ++|.....++  .+.. ..+. + .+ ....+...+.+ .... .+.       +.++...            +.+    
T Consensus        74 ~~v~~~~~~~--~~~~-~~~~-~-~~-~~~~~~~~~~~-~~~~-~~~-------~~~~~~~------------~~~----  122 (309)
T 1pqv_S           74 DAINKNKRSR--QAQQ-HHQD-H-AP-GNAEDKTTVGE-SVNG-VQQ-------PASSQSD------------AMK----  122 (309)
T ss_pred             HHHHHhccCC--cccc-cccc-c-cc-ccccCCCCCCC-CcCC-CCC-------Ccccccc------------ccc----
Confidence            9998775433  2110 0000 0 00 00000000000 0000 000       0000000            000    


Q ss_pred             CcchhhhhhccCCCCcCCCccccc--ccCCChHHHHHHHHHHHHHHhhhcCCCchhhhhhcCCCChHHHHHHHHHHHHHh
Q 017510          161 DNVDAEAIREEKPASAVVPQKLVS--MIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEK  238 (370)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~p~~~~--~~~t~d~vR~k~r~lL~~aL~~~~~~~~~~~~~~~~~~~~~~~A~~IE~~if~~  238 (370)
                      ...        .+.....+|+.+.  ...++|.+|++||+||+++|..+..+.+.         ++..+|.+||.+||+.
T Consensus       123 ~~~--------~~~~~~~~~~~~~~~~~~~~d~~R~k~r~~L~~aL~~~~~~~~~---------~~~~~A~~IE~al~~~  185 (309)
T 1pqv_S          123 QDK--------YVSTKPRNSKNDGVDTAIYHHKLRDQVLKALYDVLAKESEHPPQ---------SILHTAKAIESEMNKV  185 (309)
T ss_pred             CCC--------CCCCCCCCCCCCCCCcCcCChHHHHHHHHHHHHHHhcCCCccch---------hHHHHHHHHHHHHHHH
Confidence            000        0000001122222  23688999999999999999875433221         4568999999999999


Q ss_pred             hCCCchh--hhHHHHhHHhhcCCCCChHhhhchhcCCCChhhhcCCChhhcCChHHHHHHHHHHHHHhhcccCcccCCCC
Q 017510          239 WGHSFGT--YEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEMVSDGSRRLNQQIKKERASDRYLPWKGGYL  316 (370)
Q Consensus       239 ~~~~~~~--Yk~k~Rsl~~NLKd~kNp~Lr~~vl~G~isp~~lv~Ms~eEmas~e~k~~r~~~~~e~l~~~~l~~~~~~~  316 (370)
                      |++++.+  |+++||+|+|||||++||.||++||.|+|+|++||.|+++||||++++++++++++++|+++++++..   
T Consensus       186 ~~~~~~~~~Yk~k~Rsl~~NLKd~~N~~Lr~~vl~g~i~p~~lv~Ms~eElasde~k~~~~~~~~e~l~~~~~~~~~---  262 (309)
T 1pqv_S          186 NNCDTNEAAYKARYRIIYSNVISKNNPDLKHKIANGDITPEFLATCDAKDLAPAPLKQKIEEIAKQNLYNAQGATIE---  262 (309)
T ss_pred             hCCCchhHHHHHHHHHHHHHcCcCCChHHHHHHHcCCCCHHHHhcCCHHHhCCHHHHHHHHHHHHHHHHHhhhcccc---
Confidence            9877777  99999999999999999999999999999999999999999999999999999999999999887644   


Q ss_pred             CCccccccccccCCCCcceEEEeeccccCCC-----ceeccCCCCcceeh
Q 017510          317 GPIYHSTRYMCGRCGHKKTTNHGNDQNSSAK-----RIKCLNCYQYWEST  361 (370)
Q Consensus       317 ~~~~~t~~~~C~~C~~~~~~~~q~~Q~RsaD-----f~~C~~Cg~~w~~~  361 (370)
                        .+.++.++|++||+++|+|+|+ |+||||     ||+|.+|||+|+||
T Consensus       263 --~~~~~~~~C~~C~~~~~~~~q~-Q~rsaDe~~t~f~~C~~Cg~~w~fc  309 (309)
T 1pqv_S          263 --RSVTDRFTCGKCKEKKVSYYQL-QTRSADEPLTTFCTCEACGNRWKFS  309 (309)
T ss_pred             --ccCcccccCCCCCCCeeEEEEe-ecccCCCCCcEEEEeCCCCCceecC
Confidence              3778899999999999999999 999999     99999999999999
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A Back     alignment and structure
>2lw4_A Transcription elongation factor A protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>3ndq_A Transcription elongation factor A protein 1; helix bundle; 1.93A {Homo sapiens} Back     alignment and structure
>2dme_A PHD finger protein 3; PHF3, TFS2M, glioblastoma multiforme, brain tumor, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1wjt_A Transcription elongation factor S-II protein 3; four-helix bundle, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.48.3.1 Back     alignment and structure
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1 Back     alignment and structure
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1 Back     alignment and structure
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Back     alignment and structure
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ... Back     alignment and structure
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae} Back     alignment and structure
>2xpp_A IWS1, ECU08_0440; transcription, elongation, histone chaperone, RNA polymerase mRNA export; 1.74A {Encephalitozoon cuniculi} PDB: 2xpo_A 2xpn_A 2xpl_A Back     alignment and structure
>3nfq_A Transcription factor IWS1; SPN1, RNA polymerase II; 1.85A {Saccharomyces cerevisiae} PDB: 3o8z_A 3oak_A Back     alignment and structure
>2b4j_C PC4 and SFRS1 interacting protein; HIV, integration, transcription, viral protein, recombinatio; 2.02A {Homo sapiens} SCOP: a.48.4.1 PDB: 3f9k_C 3hpg_G 3u88_C* 3hph_E Back     alignment and structure
>1z9e_A PC4 and SFRS1 interacting protein 2; heat repeat-like, ledgf, protein binding/transcription complex; NMR {Homo sapiens} SCOP: a.48.4.1 Back     alignment and structure
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5 Back     alignment and structure
>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4 Back     alignment and structure
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit; zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP: g.59.1.1 Back     alignment and structure
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA 6MA; 2.05A {Streptococcus pneumoniae} Back     alignment and structure
>1vq8_Z 50S ribosomal protein L37AE; 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: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ... 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 370
d1enwa_114 a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Bak 4e-20
d1wjta_103 a.48.3.1 (A:) Transcription elongation factor S-II 6e-06
d1eo0a_77 a.48.3.1 (A:) Transcription elongation factor TFII 6e-05
>d1enwa_ a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 114 Back     information, alignment and structure

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: Elongation factor TFIIS domain 2
family: Elongation factor TFIIS domain 2
domain: Elongation factor TFIIS domain 2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 82.6 bits (204), Expect = 4e-20
 Identities = 24/107 (22%), Positives = 45/107 (42%), Gaps = 11/107 (10%)

Query: 183 VSMIKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGHS 242
           V     +   R+++ + LY  L+K S    + +         +  A   ES M +     
Sbjct: 13  VDTAIYHHKLRDQVLKALYDVLAKESEHPPQSI---------LHTAKAIESEMNKVNNCD 63

Query: 243 FGT--YEVKYRSILFNLMDPENPDFRRKVLLGHVKPEALIKMSSEEM 287
                Y+ +YR I  N++   NPD + K+  G + PE L    ++++
Sbjct: 64  TNEAAYKARYRIIYSNVISKNNPDLKHKIANGDITPEFLATCDAKDL 110
>d1wjta_ a.48.3.1 (A:) Transcription elongation factor S-II protein 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 103 Back     information, alignment and structure
>d1eo0a_ a.48.3.1 (A:) Transcription elongation factor TFIIS N-domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 77 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 ?
Query370
d1enwa_114 Elongation factor TFIIS domain 2 {Baker's yeast (S 99.89
d1tfia_50 Transcriptional factor SII, C-terminal domain {Hum 99.69
d1eo0a_77 Transcription elongation factor TFIIS N-domain {Ba 99.65
d1wjta_103 Transcription elongation factor S-II protein 3 {Mo 99.59
d1qypa_57 RBP9 subunit of RNA polymerase II {Archaeon Thermo 99.42
d1twfi272 RBP9 subunit of RNA polymerase II {Baker's yeast ( 99.3
d2b4jc181 PC4 and SFRS1-interacting protein, PSIP1 {Human (H 97.75
d2akla238 Hypothetical protein PA0128, N-terminal domain {Ps 95.02
d1twfl_46 RBP12 subunit of RNA polymerase II {Baker's yeast 90.88
d1wiia_85 Hypothetical UPF0222 protein MGC4549 {Mouse (Mus m 83.81
>d1enwa_ a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: Elongation factor TFIIS domain 2
family: Elongation factor TFIIS domain 2
domain: Elongation factor TFIIS domain 2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=1.5e-24  Score=179.99  Aligned_cols=96  Identities=24%  Similarity=0.395  Sum_probs=84.8

Q ss_pred             cCCChHHHHHHHHHHHHHHhhhcCCCchhhhhhcCCCChHHHHHHHHHHHHHhhCC--CchhhhHHHHhHHhhcCCCCCh
Q 017510          186 IKCNDYFRERIREKLYKALSKVSGEVDEEVQDKLNGCDPIRVAITAESLMFEKWGH--SFGTYEVKYRSILFNLMDPENP  263 (370)
Q Consensus       186 ~~t~d~vR~k~r~lL~~aL~~~~~~~~~~~~~~~~~~~~~~~A~~IE~~if~~~~~--~~~~Yk~k~Rsl~~NLKd~kNp  263 (370)
                      ..++|++|++|+++|+++|.....+.+.         ....+|.+||++||..|+.  ++..|++|+|||+|||||++||
T Consensus        16 ~~~~d~~R~~~~~~L~~aL~~~~~~~~~---------~~~~la~~IE~~lf~~~~~~~~~~~Y~~k~rsi~~NLkd~~N~   86 (114)
T d1enwa_          16 AIYHHKLRDQVLKALYDVLAKESEHPPQ---------SILHTAKAIESEMNKVNNCDTNEAAYKARYRIIYSNVISKNNP   86 (114)
T ss_dssp             CSSTTTTHHHHHHHHHHHHHHHCSSSCS---------CHHHHHHHHTTTTTSSCTTTTTHHHHHHHHHHHHHHHTTSCCC
T ss_pred             ccCCcHHHHHHHHHHHHHHhCcCccchh---------HHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHcCccchH
Confidence            4678999999999999999976544433         3358999999999999863  3468999999999999999999


Q ss_pred             HhhhchhcCCCChhhhcCCChhhcCCh
Q 017510          264 DFRRKVLLGHVKPEALIKMSSEEMVSD  290 (370)
Q Consensus       264 ~Lr~~vl~G~isp~~lv~Ms~eEmas~  290 (370)
                      +||++|++|+|+|++||.|+++|||+.
T Consensus        87 ~L~~~v~~g~i~p~~l~~M~~~ElaP~  113 (114)
T d1enwa_          87 DLKHKIANGDITPEFLATCDAKDLAPA  113 (114)
T ss_dssp             CTTTHHHHCSSCCSSHHHHTTTTTCSC
T ss_pred             HHHHHHHcCCCCHHHHhCCCHHHcCCC
Confidence            999999999999999999999999984
>d1tfia_ g.41.3.1 (A:) Transcriptional factor SII, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1eo0a_ a.48.3.1 (A:) Transcription elongation factor TFIIS N-domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1wjta_ a.48.3.1 (A:) Transcription elongation factor S-II protein 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1qypa_ g.41.3.1 (A:) RBP9 subunit of RNA polymerase II {Archaeon Thermococcus celer [TaxId: 2264]} Back     information, alignment and structure
>d1twfi2 g.41.3.1 (I:50-121) RBP9 subunit of RNA polymerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2b4jc1 a.48.4.1 (C:346-426) PC4 and SFRS1-interacting protein, PSIP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1twfl_ g.41.9.2 (L:) RBP12 subunit of RNA polymerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1wiia_ g.41.3.4 (A:) Hypothetical UPF0222 protein MGC4549 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure