Citrus Sinensis ID: 037763

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----
MKEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAKVVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNPGIEVLPI
cHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccHHHHHccccEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccHHHHHHHHcccccccHHccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccc
cHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHccccHEHHHHccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHcccccHHHHHHccHHHHccHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEcccccccccccccccEEEEEccccccccccccccccccc
MKEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRsagicfpgynghefpvkneqvipanhnngkldqkkqtkEGRKITSALSADfskakvvknVKVEEVINEYqgnvpnasnslkcnDCIREIVREKLYGALSKVseeaghdnkeIIDQVRACDPIQVAISVESAIYenwgrstgtykFKYRCLLfnindptnreFRKKVllgrvkpekIVNMTAKEMASDKMQLWYENLEKeragtngrifsgivspkKIISgickcgrcrhtRMSFISLRRHIACLNcnqywdstnpgievlpi
MKEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPanhnngkldqkkqtkEGRKITsalsadfskakvvkNVKVEEVINeyqgnvpnasnslkCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFnindptnrefrkkvllgrvkpekivnMTAKEMASDKMQLWYENLEKeragtngrifsgivspkkiisgickcgrCRHTRMSFISLRRHIACLNCnqywdstnpgievlpi
MKEKMMELYEaakraamaaVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAkvvknvkveevineYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNPGIEVLPI
*************RAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKN**********************************KAKVVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNP*******
*KEKMMELYEAA*******************LDALDQLKNCSITYQLLVSTQVAR********************IWTISLKQIYHLL*************************************************************************QGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEM*****************************************RCRHTRMSFISLRRHIACLNCNQYWDSTNP*IEVLPI
MKEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGK************ITSALSADFSKAKVVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNPGIEVLPI
****MMELYEAAKRAAMAAVWK*GGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIY********************************************************************************PNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNPGIEVLPI
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MKEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAKVVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRRHIACLNCNQYWDSTNPGIEVLPI
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 ?
Query354 2.2.26 [Sep-21-2011]
P23193301 Transcription elongation yes no 0.768 0.903 0.257 8e-12
P10711301 Transcription elongation yes no 0.483 0.568 0.276 3e-10
Q4KLL0301 Transcription elongation yes no 0.483 0.568 0.276 3e-10
Q29RL9301 Transcription elongation yes no 0.483 0.568 0.276 4e-10
Q92576 2039 PHD finger protein 3 OS=H no no 0.372 0.064 0.312 7e-10
Q15560299 Transcription elongation no no 0.429 0.508 0.261 2e-09
Q148K0300 Transcription elongation no no 0.429 0.506 0.278 2e-09
P52652308 Putative transcription el yes no 0.353 0.405 0.283 3e-08
Q6ZMY3 1216 SPOC domain-containing pr no no 0.251 0.073 0.333 5e-08
P20232313 Transcription elongation no no 0.420 0.476 0.264 9e-08
>sp|P23193|TCEA1_HUMAN Transcription elongation factor A protein 1 OS=Homo sapiens GN=TCEA1 PE=1 SV=2 Back     alignment and function desciption
 Score = 71.6 bits (174), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 82/319 (25%), Positives = 129/319 (40%), Gaps = 47/319 (14%)

Query: 29  AQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPC-EKIQLFAIELIWTISLKQIYHL 87
           A  LD L +LKN  +T +LL ST++   +  + K    E++   A  LI     K    L
Sbjct: 22  AGALDLLKELKNIPMTLELLQSTRIGMSVNAIRKQSTDEEVTSLAKSLI-----KSWKKL 76

Query: 88  LECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAK 147
           L+         P         K E  I + +          + E R+ +++ S + S  K
Sbjct: 77  LD--------GPSTEKDLDEKKKEPAITSQN----------SPEAREESTS-SGNVSNRK 117

Query: 148 VVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQ 207
              N +     + Y  + P A ++   +D +R   RE L  AL       G D   I   
Sbjct: 118 DETNAR-----DTYVSSFPRAPST---SDSVRLKCREMLAAAL-----RTGDDYIAI--- 161

Query: 208 VRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEK 267
               D  ++   +E AIY+    +   YK + R  + N+ D  N   RK VL G + P+ 
Sbjct: 162 --GADEEELGSQIEEAIYQEIRNTDMKYKNRVRSRISNLKDAKNPNLRKNVLCGNIPPDL 219

Query: 268 IVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFI 327
              MTA+EMASD+++   +NL KE    +    +G         G CK   C +T++   
Sbjct: 220 FARMTAEEMASDELKEMRKNLTKEAIREHQMAKTGGTQTDLFTCGKCKKKNCTYTQVQTR 279

Query: 328 S----LRRHIACLNCNQYW 342
           S    +   + C  C   W
Sbjct: 280 SADEPMTTFVVCNECGNRW 298
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|P10711|TCEA1_MOUSE Transcription elongation factor A protein 1 OS=Mus musculus GN=Tcea1 PE=1 SV=2 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|Q29RL9|TCEA1_BOVIN Transcription elongation factor A protein 1 OS=Bos taurus GN=TCEA1 PE=2 SV=1 Back     alignment and function description
>sp|Q92576|PHF3_HUMAN PHD finger protein 3 OS=Homo sapiens GN=PHF3 PE=1 SV=3 Back     alignment and function description
>sp|Q15560|TCEA2_HUMAN Transcription elongation factor A protein 2 OS=Homo sapiens GN=TCEA2 PE=1 SV=1 Back     alignment and function description
>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|P52652|TFS2_CAEEL Putative transcription elongation factor S-II OS=Caenorhabditis elegans GN=T24H10.1 PE=3 SV=1 Back     alignment and function description
>sp|Q6ZMY3|SPOC1_HUMAN SPOC domain-containing protein 1 OS=Homo sapiens GN=SPOCD1 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

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 ?
Query354
388514187369 unknown [Medicago truncatula] 0.926 0.888 0.347 6e-47
449441244369 PREDICTED: transcription elongation fact 0.918 0.880 0.360 7e-46
225439709367 PREDICTED: transcription elongation fact 0.918 0.885 0.356 9e-46
255559741330 transcription elongation factor s-II, pu 0.836 0.896 0.357 1e-44
255637690368 unknown [Glycine max] 0.920 0.885 0.341 2e-44
255575598342 transcription elongation factor s-II, pu 0.867 0.897 0.363 3e-44
356509090368 PREDICTED: putative transcription elonga 0.920 0.885 0.341 3e-44
297735532322 unnamed protein product [Vitis vinifera] 0.844 0.928 0.356 7e-44
224087871352 predicted protein [Populus trichocarpa] 0.895 0.900 0.339 2e-43
224139382334 predicted protein [Populus trichocarpa] 0.895 0.949 0.351 6e-42
>gi|388514187|gb|AFK45155.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
 Score =  194 bits (493), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 128/368 (34%), Positives = 190/368 (51%), Gaps = 40/368 (10%)

Query: 5   MMELYEAAKRAAMAAVWKEGG-AEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKH 63
           ++ELYEAAK+AA A+   +   +EE +CLDAL+QLKN  + Y++LV+TQV +HL  + KH
Sbjct: 9   LVELYEAAKKAADASTSTDNSPSEETRCLDALEQLKNFPVNYKILVNTQVGKHLKTLTKH 68

Query: 64  PCEKIQLFAIELI--W-TISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPA---- 116
           P E I+ FA++LI  W  + +K+          + +     NG        Q  P+    
Sbjct: 69  PRENIRTFAVDLIAIWKDVIIKETSKNKNGASDSKV--ESTNGERAKAGKLQKSPSVKVE 126

Query: 117 -------NHNNGKLDQKKQTKEGR------KITSALSADFSKAKVVKNVKVEEVINEYQG 163
                     NG    K  +   R      KI         KAK  K V   + I+    
Sbjct: 127 KGESAKVEKVNGNGSSKLSSGNVRAQNVDVKIEKTDRTSNIKAKEEKPVSAAKKISSSAA 186

Query: 164 NVPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESA 223
             P     +K ND  R+ +RE L  AL+KV EEA  D   ++D+V ACDPI+VA++VES 
Sbjct: 187 APPKLKTMIKSNDSARDKIRELLRDALAKVFEEADED---MMDEVNACDPIRVAVTVESV 243

Query: 224 IYENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQL 283
           ++ENWG S G  K KYR L+FN+ D  N +FR+KVLLG V+P+++  M++ EMAS++ + 
Sbjct: 244 LFENWGPSNGAQKVKYRSLMFNLKDQKNPDFRRKVLLGTVEPQRLAVMSSAEMASEQRKQ 303

Query: 284 WYENLEKERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLR---------RHIA 334
             E +E++      R       PK       KCGRC   + ++  ++          ++ 
Sbjct: 304 ENEKIEQKALFDCERGL----QPKATTDQF-KCGRCGQRKTTYYQMQTRSADEPMTTYVT 358

Query: 335 CLNCNQYW 342
           C+NCN  W
Sbjct: 359 CVNCNNRW 366

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449441244|ref|XP_004138392.1| PREDICTED: transcription elongation factor A protein 3-like [Cucumis sativus] 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|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|255637690|gb|ACU19168.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|255575598|ref|XP_002528699.1| transcription elongation factor s-II, putative [Ricinus communis] gi|223531871|gb|EEF33688.1| transcription elongation factor s-II, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356509090|ref|XP_003523285.1| PREDICTED: putative transcription elongation factor S-II-like [Glycine max] Back     alignment and taxonomy information
>gi|297735532|emb|CBI18026.3| unnamed protein product [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|224139382|ref|XP_002323085.1| predicted protein [Populus trichocarpa] gi|222867715|gb|EEF04846.1| predicted protein [Populus trichocarpa] 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 ?
Query354
TAIR|locus:2064195378 TFIIS "transcript elongation f 0.474 0.444 0.368 1.9e-39
TAIR|locus:2124097266 AT4G18720 [Arabidopsis thalian 0.330 0.439 0.422 7.9e-24
TAIR|locus:2052351737 AT2G42730 [Arabidopsis thalian 0.364 0.175 0.416 5.1e-19
UNIPROTKB|F1MIT2280 TCEA1 "Transcription elongatio 0.477 0.603 0.279 8.8e-13
RGD|1309880301 Tcea1 "transcription elongatio 0.607 0.714 0.241 9.5e-13
MGI|MGI:1196624301 Tcea1 "transcription elongatio 0.477 0.561 0.279 9.9e-13
UNIPROTKB|F1RSG8300 TCEA1 "Uncharacterized protein 0.477 0.563 0.279 1.2e-12
UNIPROTKB|E2QVN6301 TCEA1 "Uncharacterized protein 0.477 0.561 0.279 1.3e-12
UNIPROTKB|Q29RL9301 TCEA1 "Transcription elongatio 0.477 0.561 0.279 1.7e-12
UNIPROTKB|P23193301 TCEA1 "Transcription elongatio 0.477 0.561 0.279 1.7e-12
TAIR|locus:2064195 TFIIS "transcript elongation factor IIS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 309 (113.8 bits), Expect = 1.9e-39, Sum P(2) = 1.9e-39
 Identities = 69/187 (36%), Positives = 111/187 (59%)

Query:   166 PNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIY 225
             P  +  LKCND +R+ +RE L  AL +V+ EA    +E    V A DP++VA+SVES ++
Sbjct:   198 PKLTAMLKCNDPVRDKIRELLVEALCRVAGEADDYERE---SVNASDPLRVAVSVESLMF 254

Query:   226 ENWGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWY 285
             E  GRSTG  K KYR ++FN+ D  N + R++VL G + PEK++ ++A++MASDK +   
Sbjct:   255 EKLGRSTGAQKLKYRSIMFNLRDSNNPDLRRRVLTGEISPEKLITLSAEDMASDKRK--Q 312

Query:   286 ENLE-KERAGTNGRIFSGIVSPKKIISGICKCGRCRHTRMSFISLRR---------HIAC 335
             EN + KE+A  +     G+ +  K  +   KCGRC   + ++  ++          ++ C
Sbjct:   313 ENNQIKEKALFDCE--RGLAA--KASTDQFKCGRCGQRKCTYYQMQTRSADEPMTTYVTC 368

Query:   336 LNCNQYW 342
             +NC+ +W
Sbjct:   369 VNCDNHW 375
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|F1MIT2 TCEA1 "Transcription elongation factor A protein 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
RGD|1309880 Tcea1 "transcription elongation factor A (SII) 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1196624 Tcea1 "transcription elongation factor A (SII) 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1RSG8 TCEA1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2QVN6 TCEA1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q29RL9 TCEA1 "Transcription elongation factor A protein 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P23193 TCEA1 "Transcription elongation factor A protein 1" [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 Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query354
TIGR01385299 TIGR01385, TFSII, transcription elongation factor 1e-30
pfam07500115 pfam07500, TFIIS_M, Transcription factor S-II (TFI 9e-27
smart00510102 smart00510, TFS2M, Domain in the central regions o 2e-25
cd0018376 cd00183, TFIIS_I, N-terminal domain (domain I) of 2e-07
smart0050975 smart00509, TFS2N, Domain in the N-terminus of tra 2e-04
>gnl|CDD|233390 TIGR01385, TFSII, transcription elongation factor S-II Back     alignment and domain information 
 Score =  117 bits (295), Expect = 1e-30
 Identities = 84/344 (24%), Positives = 137/344 (39%), Gaps = 61/344 (17%)

Query: 11  AAKRAAMAAVWK-EGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQ 69
           A   +   A+ K +      QCLD L QLK    T +LL  T+V   +  + KHP E I 
Sbjct: 2   AEVASHAKALDKNKSSKNVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDIS 61

Query: 70  LFAIELIWTISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQT 129
                       K    +++ ++         +    P     V  +  N+ K + K Q+
Sbjct: 62  ------------KLAKKIIKSWKKVVDKNKSDHPGGNPEDKTTVGESV-NSVKQEAKSQS 108

Query: 130 -KEGRKITSALSADFSKAKVVKNVKVEEVINEYQGNVPNASNSLKCNDCIREIVREKLYG 188
            K  +    + S   +K   V                     +   ND +R+  RE LY 
Sbjct: 109 DKIEQPKYVSSSPRNAKNDFV--------------------PTAVTNDKVRDKCRELLYD 148

Query: 189 ALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLFNIND 248
           AL+K S+             ++ DP   AI +E   + N G +   YK +YR +  N+ D
Sbjct: 149 ALAKDSDHP----------PQSIDPEAKAIQIEELKFNNLGTTEAAYKARYRSIYSNLRD 198

Query: 249 PTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVS-PK 307
             N + R  VL G + PEK+  MTA+EMAS +++   E + KE       +F    +  +
Sbjct: 199 KNNPDLRHNVLTGEITPEKLATMTAEEMASAELKQEREEITKE------NLFEAQGAKIQ 252

Query: 308 KIISGICKCGRCRHTRMSFISLRRHIA---------CLNCNQYW 342
           K ++ +  CG+C+  + ++  L+   A         C  C   W
Sbjct: 253 KAVTDLFTCGKCKQKKCTYYQLQTRSADEPMTTFVTCEECGNRW 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 354
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 99.96
PF07500115 TFIIS_M: Transcription factor S-II (TFIIS), centra 99.93
smart0050975 TFS2N Domain in the N-terminus of transcription el 99.61
cd0018376 TFIIS_I N-terminal domain (domain I) of transcript 99.47
KOG1634 778 consensus Predicted transcription factor DATF1, co 99.39
PF0871153 Med26: TFIIS helical bundle-like domain; InterPro: 99.13
smart0044040 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo 98.96
PF0109639 TFIIS_C: Transcription factor S-II (TFIIS); InterP 98.91
COG1594113 RPB9 DNA-directed RNA polymerase, subunit M/Transc 98.7
PHA02998195 RNA polymerase subunit; Provisional 98.48
TIGR01384104 TFS_arch transcription factor S, archaeal. There h 98.41
KOG2906105 consensus RNA polymerase III subunit C11 [Transcri 98.27
KOG2691113 consensus RNA polymerase II subunit 9 [Transcripti 98.03
KOG2907116 consensus RNA polymerase I transcription factor TF 96.9
PF11467106 LEDGF: Lens epithelium-derived growth factor (LEDG 96.15
KOG2821433 consensus RNA polymerase II transcription elongati 95.95
PF0985564 DUF2082: Nucleic-acid-binding protein containing Z 95.64
KOG1793417 consensus Uncharacterized conserved protein [Funct 95.22
COG347868 Predicted nucleic-acid-binding protein containing 94.95
COG5139397 Uncharacterized conserved protein [Function unknow 94.75
COG205167 RPS27A Ribosomal protein S27E [Translation, riboso 94.07
PF0827143 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013 92.95
COG4888104 Uncharacterized Zn ribbon-containing protein [Gene 91.85
PRK0967872 DNA-binding transcriptional regulator; Provisional 91.22
PF0827430 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01 91.07
PRK0041559 rps27e 30S ribosomal protein S27e; Reviewed 90.97
TIGR0209838 MJ0042_CXXC MJ0042 family finger-like domain. This 90.8
PF0166755 Ribosomal_S27e: Ribosomal protein S27; InterPro: I 90.54
PTZ0008385 40S ribosomal protein S27; Provisional 90.49
PLN0020986 ribosomal protein S27; Provisional 90.29
PF1276046 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int 90.24
TIGR00686109 phnA alkylphosphonate utilization operon protein P 89.18
PF0360432 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa 89.07
PF0518066 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc 88.86
PF1371736 zinc_ribbon_4: zinc-ribbon domain 88.51
PF0460647 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: I 87.92
KOG350762 consensus DNA-directed RNA polymerase, subunit RPB 87.86
PF1371937 zinc_ribbon_5: zinc-ribbon domain 86.91
smart0065944 RPOLCX RNA polymerase subunit CX. present in RNA p 86.32
PRK10220111 hypothetical protein; Provisional 86.05
PF0952671 DUF2387: Probable metal-binding protein (DUF2387); 86.0
PHA0062659 hypothetical protein 84.45
PF10080102 DUF2318: Predicted membrane protein (DUF2318); Int 83.62
TIGR0244359 conserved hypothetical metal-binding protein. Memb 83.33
COG199649 RPC10 DNA-directed RNA polymerase, subunit RPC10 ( 83.32
PF09332344 Mcm10: Mcm10 replication factor; InterPro: IPR0154 83.23
KOG1886464 consensus BAH domain proteins [Transcription] 82.79
PF1178136 RRN7: RNA polymerase I-specific transcription init 82.75
PRK0039846 rpoP DNA-directed RNA polymerase subunit P; Provis 82.02
smart00531147 TFIIE Transcription initiation factor IIE. 81.49
>TIGR01385 TFSII transcription elongation factor S-II Back     alignment and domain information 
Probab=100.00  E-value=1e-62  Score=474.13  Aligned_cols=285  Identities=28%  Similarity=0.419  Sum_probs=207.4

Q ss_pred             HHHHHHHHHHHHHhhhcCCccHHHHHHHHHHhhcCCCcHHhhhcccceeeccccccCCCHHHHHHHhhhh--cccchhhh
Q 037763            7 ELYEAAKRAAMAAVWKEGGAEEAQCLDALDQLKNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELI--WTISLKQI   84 (354)
Q Consensus         7 ~l~~~~~~~a~~~~~~~~~~~~~~~l~~L~~L~~~~~t~~~L~~T~iG~~v~~Lrkh~~~~I~~~Ak~Li--WK~~l~~~   84 (354)
                      |+...++..-+++ .   +.+++.||++|++|+.++||+++|++|+||++||+||||++++|+.+|+.||  ||+    +
T Consensus         3 ei~~~~k~L~k~~-~---~~~~~~~l~~L~~L~~~~~t~~lL~~T~IG~~Vn~lrkh~~~~I~~lAk~li~~WK~----~   74 (299)
T TIGR01385         3 EVASHAKALDKNK-S---SKNVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKK----V   74 (299)
T ss_pred             HHHHHHHHhhhhc-c---CCCHHHHHHHHHHHhcCCCcHHHHhhCchhHHHHHHHcCCcHHHHHHHHHHHHHHHH----H
Confidence            4445555443322 1   4678899999999999999999999999999999999999999999999999  999    8


Q ss_pred             hhhhcccccCCCCCCCCCCCCCCCCccccCccCCCCCCcccccccccccccccccccccccccccccccchhhcccccCC
Q 037763           85 YHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAKVVKNVKVEEVINEYQGN  164 (354)
Q Consensus        85 ~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~e~~~~~~~~~  164 (354)
                      |. .+..+......+.....++++     ++...+.     +.++ .     ..+ .+...++..+.            .
T Consensus        75 v~-~~k~~~~~~~~~~~~~~~~~~-----~~~~~~~-----~~~~-~-----~~~-~~~~~~~~~~~------------~  124 (299)
T TIGR01385        75 VD-KNKSDHPGGNPEDKTTVGESV-----NSVKQEA-----KSQS-D-----KIE-QPKYVSSSPRN------------A  124 (299)
T ss_pred             Hh-hhcccCcccccccccccCCCC-----CCCCccc-----cCCc-c-----ccc-CCCCCCCcccc------------c
Confidence            82 221111000000000000000     0000000     0000 0     000 00000000011            1


Q ss_pred             CCCCCCCCCCChHHHHHHHHHHHHHHhhhhhhcCCCchhhhhhhccCChHHHHHhhHHHHHHHhCCCchhhhhhHhhHHh
Q 037763          165 VPNASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTYKFKYRCLLF  244 (354)
Q Consensus       165 ~~~~~~~~~t~d~vR~k~r~~L~~aL~~~~~~~~~~~~~~~~~~~~~~~~~lA~~IE~aif~~~~~~~~~Yk~k~Rsl~~  244 (354)
                      .+.....+.++|++|++||+|||+||..+..+.+          ..+++..+|.+||.+||..|+.+++.|+++||||+|
T Consensus       125 ~~~~~~~~~t~d~~Rdk~r~~L~~aL~~~~~~~~----------~~~~~~~lA~~iE~~~f~~~~~~~~~Yk~k~Rsl~~  194 (299)
T TIGR01385       125 KNDFVPTAVTNDKVRDKCRELLYDALAKDSDHPP----------QSIDPEAKAIQIEELKFNNLGTTEAAYKARYRSIYS  194 (299)
T ss_pred             CCCCCCCccCCcHHHHHHHHHHHHHHhhcCCCCc----------cccCHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHH
Confidence            1222224579999999999999999997543221          234677899999999999999888999999999999


Q ss_pred             hcCCCCCHHHHHHHhcCCCCchhcccCChhhcCCHHHHHHHHHHHHHhcCCcCcccccccC-CCcccccceEeCCCCCcc
Q 037763          245 NINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVS-PKKIISGICKCGRCRHTR  323 (354)
Q Consensus       245 NLKd~kNp~Lr~~vl~G~isp~~lv~Ms~eEmAS~e~k~~re~~~~~~~~~~~~~~~~~~~-~~~~~td~f~C~kC~~~k  323 (354)
                      ||||++||+||++|++|+|+|++||.|+++||||+|+|++++++.++....      ++++ ..++.||+|+|++||+++
T Consensus       195 NLKd~kNp~Lr~~vl~G~i~p~~lv~Ms~eEmas~e~k~~~e~~~ke~l~~------~~~~~~~~~~t~~~~C~~C~~~~  268 (299)
T TIGR01385       195 NLRDKNNPDLRHNVLTGEITPEKLATMTAEEMASAELKQEREEITKENLFE------AQGAKIQKAVTDLFTCGKCKQKK  268 (299)
T ss_pred             HccCCCCHHHHHHHHcCCCCHHHHhcCCHHHcCCHHHHHHHHHHHHHHHHH------HHhhhhhcCCcccccCCCCCCcc
Confidence            999999999999999999999999999999999999999999999764332      2333 377899999999999999


Q ss_pred             ceEEeeee---------eeeeccCCCccccc
Q 037763          324 MSFISLRR---------HIACLNCNQYWDST  345 (354)
Q Consensus       324 ~ty~q~QT---------Fv~C~~CgnrWk~~  345 (354)
                      |+|||+||         ||+|.+|||+|+||
T Consensus       269 ~~~~q~QtrsaDEpmT~f~~C~~Cg~~w~fc  299 (299)
T TIGR01385       269 CTYYQLQTRSADEPMTTFVTCEECGNRWKFC  299 (299)
T ss_pred             ceEEEecccCCCCCCeEEEEcCCCCCeeeeC
Confidence            99999998         99999999999998

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
>KOG1634 consensus Predicted transcription factor DATF1, contains PHD and TFS2M domains [Transcription] 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
>smart00440 ZnF_C2C2 C2C2 Zinc finger 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
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [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
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription] 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
>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
>KOG1793 consensus 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
>COG5139 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis] 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
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only] Back     alignment and domain information
>PRK09678 DNA-binding transcriptional regulator; Provisional 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
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed Back     alignment and domain information
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain Back     alignment and domain information
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PTZ00083 40S ribosomal protein S27; Provisional Back     alignment and domain information
>PLN00209 ribosomal protein S27; Provisional 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
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA 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
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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
>PF13717 zinc_ribbon_4: zinc-ribbon domain 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
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7 Back     alignment and domain information
>PF13719 zinc_ribbon_5: zinc-ribbon domain Back     alignment and domain information
>smart00659 RPOLCX RNA polymerase subunit CX Back     alignment and domain information
>PRK10220 hypothetical protein; Provisional 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
>PHA00626 hypothetical protein Back     alignment and domain information
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function Back     alignment and domain information
>TIGR02443 conserved hypothetical metal-binding protein Back     alignment and domain information
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription] Back     alignment and domain information
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha [] Back     alignment and domain information
>KOG1886 consensus BAH domain proteins [Transcription] 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
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional Back     alignment and domain information
>smart00531 TFIIE Transcription initiation factor IIE 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 ?
Query354
2dme_A120 Solution Structure Of The Tfiis Domain Ii Of Human 1e-09
2lw4_A113 Solution Nmr Structure Of Human Transcription Elong 5e-08
3ndq_A108 Structure Of Human Tfiis Domain Ii Length = 108 9e-07
3gtm_S173 Co-Complex Of Backtracked Rna Polymerase Ii With Tf 8e-05
1y1v_S179 Refined Rna Polymerase Ii-tfiis Complex Length = 17 8e-05
3po3_S178 Arrested Rna Polymerase Ii Reactivation Intermediat 9e-05
1pqv_S309 Rna Polymerase Ii-Tfiis Complex Length = 309 1e-04
>pdb|2DME|A Chain A, Solution Structure Of The Tfiis Domain Ii Of Human Phd Finger Protein 3 Length = 120 Back     alignment and structure 
Iteration: 1

 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 36/109 (33%), Positives = 59/109 (54%), Gaps = 7/109 (6%)
Query: 176 DCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGTY 235
           D IR+ VR  L   L K   ++   N ++ ++  A    +VA  +E  ++  +  +   Y
Sbjct: 10  DQIRQSVRHSLKDILMKRLTDS---NLKVPEEKAA----KVATKIEKELFSFFRDTDAKY 62
Query: 236 KFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLW 284
           K KYR L+FN+ DP N    KKVL G V P+ ++ M+ +E+AS ++  W
Sbjct: 63  KNKYRSLMFNLKDPKNNILFKKVLKGEVTPDHLIRMSPEELASKELAAW 111
>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
>pdb|3NDQ|A Chain A, Structure Of Human Tfiis Domain Ii Length = 108 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
>pdb|3PO3|S Chain S, Arrested Rna Polymerase Ii Reactivation Intermediate Length = 178 Back     alignment and structure
>pdb|1PQV|S Chain S, Rna Polymerase Ii-Tfiis Complex Length = 309 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 ?
Query354
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 8e-28
3ndq_A108 Transcription elongation factor A protein 1; helix 2e-25
1pqv_S309 STP-alpha, transcription elongation factor S-II, D 4e-21
3po3_S178 Transcription elongation factor S-II; RNA polymera 6e-19
>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 =  104 bits (261), Expect = 8e-28
 Identities = 37/124 (29%), Positives = 57/124 (45%), Gaps = 7/124 (5%)

Query: 168 ASNSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYEN 227
           +S S    D IR+ VR  L   L K   ++     E           +VA  +E  ++  
Sbjct: 2   SSGSSGSADQIRQSVRHSLKDILMKRLTDSNLKVPE-------EKAAKVATKIEKELFSF 54

Query: 228 WGRSTGTYKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYEN 287
           +  +   YK KYR L+FN+ DP N    KKVL G V P+ ++ M+ +E+AS ++  W   
Sbjct: 55  FRDTDAKYKNKYRSLMFNLKDPKNNILFKKVLKGEVTPDHLIRMSPEELASKELAAWRRR 114

Query: 288 LEKE 291
               
Sbjct: 115 SGPS 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query354
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 99.97
3ndq_A108 Transcription elongation factor A protein 1; helix 99.96
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 99.96
1wjt_A103 Transcription elongation factor S-II protein 3; fo 99.68
1tfi_A50 Transcriptional elongation factor SII; transcripti 99.33
1qyp_A57 RNA polymerase II; transcription, RPB9, Zn ribbon, 98.74
3h0g_I113 DNA-directed RNA polymerases I, II, and III subuni 98.6
1twf_I122 B12.6, DNA-directed RNA polymerase II 14.2 kDa pol 98.49
3qt1_I133 DNA-directed RNA polymerases I, II, and III subun; 98.39
2xpp_A145 IWS1, ECU08_0440; transcription, elongation, histo 97.31
3nfq_A170 Transcription factor IWS1; SPN1, RNA polymerase II 97.09
2b4j_C98 PC4 and SFRS1 interacting protein; HIV, integratio 96.28
1z9e_A127 PC4 and SFRS1 interacting protein 2; heat repeat-l 95.6
1qxf_A66 GR2, 30S ribosomal protein S27E; structural genomi 92.21
1k81_A36 EIF-2-beta, probable translation initiation factor 91.02
2xzm_681 RPS27E; ribosome, translation; 3.93A {Tetrahymena 90.88
3j20_W63 30S ribosomal protein S27E; archaea, archaeal, KIN 90.73
3iz6_X86 40S ribosomal protein S27 (S27E); eukaryotic ribos 90.29
3u5c_b82 RP61, YS20, 40S ribosomal protein S27-A; translati 89.32
2akl_A138 PHNA-like protein PA0128; two domains, Zn binding 88.38
2e2z_A100 TIM15; protein import, zinc finger, protein transp 86.9
1pft_A50 TFIIB, PFTFIIBN; N-terminal domain, transcription 82.9
>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=2.3e-58  Score=446.32  Aligned_cols=290  Identities=18%  Similarity=0.271  Sum_probs=208.7

Q ss_pred             hhhHHHHHHHHHHHHHHHhhhcCCccHHHHHHHHHHh-hcCCCcHHhhhcccceeeccccccCCCHHHHHHHhhhh--cc
Q 037763            2 KEKMMELYEAAKRAAMAAVWKEGGAEEAQCLDALDQL-KNCSITYQLLVSTQVARHLVPMLKHPCEKIQLFAIELI--WT   78 (354)
Q Consensus         2 ~~~~~~l~~~~~~~a~~~~~~~~~~~~~~~l~~L~~L-~~~~~t~~~L~~T~iG~~v~~Lrkh~~~~I~~~Ak~Li--WK   78 (354)
                      |+||+++++.+.+.         ..+++.|+++|++| +.++||+++|++|+||++||+||||++++|+.+|+.||  ||
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 SKEVLVHVKNLEKN---------KSNDAAVLEILHVLDKEFVPTEKLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWK   73 (309)
T ss_pred             HHHHHHHHHHHhcc---------CCCHHHHHHHHHHHHhcCCCCHHHHHhCChhHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            67899999888661         24688999999999 99999999999999999999999999999999999999  99


Q ss_pred             cchhhhhhhhcccccCCCCCCCCCCCCCCCCccccCccCCCCCCcccccccccccccccccccccccccccccccchhhc
Q 037763           79 ISLKQIYHLLECFRSAGICFPGYNGHEFPVKNEQVIPANHNNGKLDQKKQTKEGRKITSALSADFSKAKVVKNVKVEEVI  158 (354)
Q Consensus        79 ~~l~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~e~~~  158 (354)
                      +    +|. .+..+..+....++ .. ++...+.+++..  .. .+...+.+..   .+..+++...++           
T Consensus        74 ~----~v~-~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~--~~-~~~~~~~~~~---~~~~~~~~~~~~-----------  129 (309)
T 1pqv_S           74 D----AIN-KNKRSRQAQQHHQD-HA-PGNAEDKTTVGE--SV-NGVQQPASSQ---SDAMKQDKYVST-----------  129 (309)
T ss_pred             H----HHH-HhccCCcccccccc-cc-cccccCCCCCCC--Cc-CCCCCCcccc---cccccCCCCCCC-----------
Confidence            9    872 22121111000000 00 000000000000  00 0000000000   000000000000           


Q ss_pred             ccccCCCCCCCC--CCCCChHHHHHHHHHHHHHHhhhhhhcCCCchhhhhhhccCChHHHHHhhHHHHHHHhCCCchh--
Q 037763          159 NEYQGNVPNASN--SLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGRSTGT--  234 (354)
Q Consensus       159 ~~~~~~~~~~~~--~~~t~d~vR~k~r~~L~~aL~~~~~~~~~~~~~~~~~~~~~~~~~lA~~IE~aif~~~~~~~~~--  234 (354)
                         ...++..+.  ...++|++|++||+||++||..+..+.+            .++..+|.+||.+||+.|++++..  
T Consensus       130 ---~~~~~~~~~~~~~~~~d~~R~k~r~~L~~aL~~~~~~~~------------~~~~~~A~~IE~al~~~~~~~~~~~~  194 (309)
T 1pqv_S          130 ---KPRNSKNDGVDTAIYHHKLRDQVLKALYDVLAKESEHPP------------QSILHTAKAIESEMNKVNNCDTNEAA  194 (309)
T ss_pred             ---CCCCCCCCCCCcCcCChHHHHHHHHHHHHHHhcCCCccc------------hhHHHHHHHHHHHHHHHhCCCchhHH
Confidence               001111112  2368899999999999999986432111            145789999999999999887777  


Q ss_pred             hhhhHhhHHhhcCCCCCHHHHHHHhcCCCCchhcccCChhhcCCHHHHHHHHHHHHHhcCCcCcccccccC-CCcccccc
Q 037763          235 YKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMASDKMQLWYENLEKERAGTNGRIFSGIVS-PKKIISGI  313 (354)
Q Consensus       235 Yk~k~Rsl~~NLKd~kNp~Lr~~vl~G~isp~~lv~Ms~eEmAS~e~k~~re~~~~~~~~~~~~~~~~~~~-~~~~~td~  313 (354)
                      |++++|||+|||||++||.||++||.|+|+|++||.|+++||||+|+++++++++++....      ++++ ...+.|+.
T Consensus       195 Yk~k~Rsl~~NLKd~~N~~Lr~~vl~g~i~p~~lv~Ms~eElasde~k~~~~~~~~e~l~~------~~~~~~~~~~~~~  268 (309)
T 1pqv_S          195 YKARYRIIYSNVISKNNPDLKHKIANGDITPEFLATCDAKDLAPAPLKQKIEEIAKQNLYN------AQGATIERSVTDR  268 (309)
T ss_pred             HHHHHHHHHHHcCcCCChHHHHHHHcCCCCHHHHhcCCHHHhCCHHHHHHHHHHHHHHHHH------hhhccccccCccc
Confidence            9999999999999999999999999999999999999999999999999999999875443      4444 25678899


Q ss_pred             eEeCCCCCccceEEeeee---------eeeeccCCCccccc
Q 037763          314 CKCGRCRHTRMSFISLRR---------HIACLNCNQYWDST  345 (354)
Q Consensus       314 f~C~kC~~~k~ty~q~QT---------Fv~C~~CgnrWk~~  345 (354)
                      |+|++||+++|+|+|+||         |++|.+|||+|+||
T Consensus       269 ~~C~~C~~~~~~~~q~Q~rsaDe~~t~f~~C~~Cg~~w~fc  309 (309)
T 1pqv_S          269 FTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEACGNRWKFS  309 (309)
T ss_pred             ccCCCCCCCeeEEEEeecccCCCCCcEEEEeCCCCCceecC
Confidence            999999999999999998         99999999999998
>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
>1qxf_A GR2, 30S ribosomal protein S27E; structural genomics, beta sheet, PSI, protein structure initiative; NMR {Archaeoglobus fulgidus} SCOP: g.41.8.4 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
>2xzm_6 RPS27E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_6 Back     alignment and structure
>3j20_W 30S ribosomal protein S27E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3iz6_X 40S ribosomal protein S27 (S27E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>3u5c_b RP61, YS20, 40S ribosomal protein S27-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_X 3u5g_b 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
>2e2z_A TIM15; protein import, zinc finger, protein transport, chaperone regulator; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1 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 354
d1enwa_114 a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Bak 2e-22
d1eo0a_77 a.48.3.1 (A:) Transcription elongation factor TFII 5e-05
d1wjta_103 a.48.3.1 (A:) Transcription elongation factor S-II 1e-04
>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 = 88.7 bits (220), Expect = 2e-22
 Identities = 25/110 (22%), Positives = 47/110 (42%), Gaps = 14/110 (12%)

Query: 170 NSLKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWG 229
           ++   +  +R+ V + LY  L+K SE                  +  A ++ES + +   
Sbjct: 14  DTAIYHHKLRDQVLKALYDVLAKESEHPP------------QSILHTAKAIESEMNKVNN 61

Query: 230 RSTGT--YKFKYRCLLFNINDPTNREFRKKVLLGRVKPEKIVNMTAKEMA 277
             T    YK +YR +  N+    N + + K+  G + PE +    AK++A
Sbjct: 62  CDTNEAAYKARYRIIYSNVISKNNPDLKHKIANGDITPEFLATCDAKDLA 111
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query354
d1enwa_114 Elongation factor TFIIS domain 2 {Baker's yeast (S 99.89
d1tfia_50 Transcriptional factor SII, C-terminal domain {Hum 99.58
d1eo0a_77 Transcription elongation factor TFIIS N-domain {Ba 99.52
d1wjta_103 Transcription elongation factor S-II protein 3 {Mo 99.46
d1qypa_57 RBP9 subunit of RNA polymerase II {Archaeon Thermo 99.03
d1twfi272 RBP9 subunit of RNA polymerase II {Baker's yeast ( 98.91
d2b4jc181 PC4 and SFRS1-interacting protein, PSIP1 {Human (H 97.49
d2akla238 Hypothetical protein PA0128, N-terminal domain {Ps 94.35
d1qxfa_58 Ribosomal protein S27e {Archaeon Archaeoglobus ful 91.4
d1dl6a_58 Transcription initiation factor TFIIB, N-terminal 84.89
d1neea237 Zinc-binding domain of translation initiation fact 82.74
d1k81a_36 Zinc-binding domain of translation initiation fact 82.27
>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=1.1e-24  Score=180.11  Aligned_cols=95  Identities=25%  Similarity=0.397  Sum_probs=84.1

Q ss_pred             CCCChHHHHHHHHHHHHHHhhhhhhcCCCchhhhhhhccCChHHHHHhhHHHHHHHhCC--CchhhhhhHhhHHhhcCCC
Q 037763          172 LKCNDCIREIVREKLYGALSKVSEEAGHDNKEIIDQVRACDPIQVAISVESAIYENWGR--STGTYKFKYRCLLFNINDP  249 (354)
Q Consensus       172 ~~t~d~vR~k~r~~L~~aL~~~~~~~~~~~~~~~~~~~~~~~~~lA~~IE~aif~~~~~--~~~~Yk~k~Rsl~~NLKd~  249 (354)
                      ..++|++|++|+++|+++|.....+..+            ....+|.+||.+||..|+.  ++..|++|+|||+|||||+
T Consensus        16 ~~~~d~~R~~~~~~L~~aL~~~~~~~~~------------~~~~la~~IE~~lf~~~~~~~~~~~Y~~k~rsi~~NLkd~   83 (114)
T d1enwa_          16 AIYHHKLRDQVLKALYDVLAKESEHPPQ------------SILHTAKAIESEMNKVNNCDTNEAAYKARYRIIYSNVISK   83 (114)
T ss_dssp             CSSTTTTHHHHHHHHHHHHHHHCSSSCS------------CHHHHHHHHTTTTTSSCTTTTTHHHHHHHHHHHHHHHTTS
T ss_pred             ccCCcHHHHHHHHHHHHHHhCcCccchh------------HHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHcCcc
Confidence            4689999999999999999875443222            3468999999999999863  4468999999999999999


Q ss_pred             CCHHHHHHHhcCCCCchhcccCChhhcCC
Q 037763          250 TNREFRKKVLLGRVKPEKIVNMTAKEMAS  278 (354)
Q Consensus       250 kNp~Lr~~vl~G~isp~~lv~Ms~eEmAS  278 (354)
                      +||+||++|++|+|+|++||.|+++|||+
T Consensus        84 ~N~~L~~~v~~g~i~p~~l~~M~~~ElaP  112 (114)
T d1enwa_          84 NNPDLKHKIANGDITPEFLATCDAKDLAP  112 (114)
T ss_dssp             CCCCTTTHHHHCSSCCSSHHHHTTTTTCS
T ss_pred             chHHHHHHHHcCCCCHHHHhCCCHHHcCC
Confidence            99999999999999999999999999997
>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
>d1qxfa_ g.41.8.4 (A:) Ribosomal protein S27e {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1neea2 g.59.1.1 (A:99-135) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1k81a_ g.59.1.1 (A:) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure