Citrus Sinensis ID: 021641

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------31
Protein Sequence
MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHccccccccccccccHHHccccccccccccccccccccEEEEEcccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccHcccccccccEEcccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mdaakwpqnfpevggvKAMEEVVSNtcnsssssrppmlerkarpqeqlncprcnstntkfcyynnysltqpryfcktcrrywteggslrnvpvgggsrknkrsissSAAAAsssnnnnnnnnnynkliipdlnppslshfsshenpkilkggqdlnLGFQVMHNnandmsqyadhpavaskaetnttsndninnnmspvSALDLLRTGIasragldhfiptpmpdsntlfssgfplqdikpaatlsFSIDQANrfgiqdnigngsrlffpfgelkqlssasttevdhhsnkgtststgywngmfgggsw
Flexible Loop (DISEMBL)
mdaakwpqnfpevggvKAMEEVVSNTcnsssssrppmlerkarpqeqlncprcnstntKFCYYNNYSLTQPRYFCKTCRRYWTEggslrnvpvgggsrkNKRSISSSAAaasssnnnnnnNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAEtnttsndninnnMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGELKQLSSasttevdhhsnkgtststgywngMFGGGSW
Low Complexity Region (SEG)
MDAAKWPQNFPEVGGVKAMEEVVSNTCNsssssRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSIsssaaaasssnnnnnnnnnYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAEtnttsndninnnMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW
Disordered region (IsUnstruct)
**************************************************PRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLR*******************************************************************LGF******************************************LDLLRTGIASRAGLDHFIPT******TLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGEL***********************************
Disordered Region (DISOPRED)
***A**********************************************PRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRN****************************************************************************************************************************LDHF************S*GFPLQDIKPAA************************FFPFGE**************************WNGMFGGG**
Disordered Region (DISEMBL)
MDAAKWPQNFPEVGGVKAMEEV***********************EQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPV**********************NNNNNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGELKQ*****************STSTGYWNGMFGGGSW
Disordered Region (DISPRO)
*********************************************EQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVG**************************************NPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRF******GNGSRLFFPFGELK**********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQANRFGIQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	309	2.2.26 [Sep-21-2011]
Q43385	296	Dof zinc finger protein D	no	no	0.809	0.844	0.430	8e-55
Q9ZPY0	369	Dof zinc finger protein D	no	no	0.922	0.772	0.430	2e-54
Q8LAP8	342	Dof zinc finger protein D	no	no	0.893	0.807	0.382	6e-46
Q84JQ8	352	Dof zinc finger protein D	no	no	0.928	0.815	0.380	4e-36
Q9M161	294	Dof zinc finger protein D	no	no	0.724	0.761	0.345	3e-29
Q84TE9	257	Dof zinc finger protein D	no	no	0.229	0.276	0.760	2e-28
O24463	328	Dof zinc finger protein P	N/A	no	0.317	0.298	0.535	7e-28
Q9M2U1	323	Dof zinc finger protein D	no	no	0.265	0.253	0.659	1e-27
Q9M1E6	245	Dof zinc finger protein D	no	no	0.245	0.310	0.657	2e-26
Q9LSL6	316	Dof zinc finger protein D	no	no	0.297	0.291	0.583	4e-26

>sp|Q43385|DOF37_ARATH Dof zinc finger protein DOF3.7 OS=Arabidopsis thaliana GN=DOF3.7 PE=1 SV=2

 Score =  214 bits (544), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 153/355 (43%), Positives = 184/355 (51%), Gaps = 105/355 (29%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPP------------------------ 36
           MDA KW Q F E+  VK ME+++S+T N++   +P                         
Sbjct: 1   MDATKWTQGFQEMINVKPMEQMISSTNNNTPQQQPTFIATNTRPNATASNGGSGGNTNNT 60

Query: 37  --MLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVG 94
             M  RKARPQE++NCPRCNSTNTKFCYYNNYSLTQPRYFCK CRRYWTEGGSLRNVPVG
Sbjct: 61  ATMETRKARPQEKVNCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNVPVG 120

Query: 95  GGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQD 154
           G SRKNKR   SS   AS SN             +PDLNPP L  FSS + P   K  +D
Sbjct: 121 GSSRKNKR---SSTPLASPSNPK-----------LPDLNPPIL--FSS-QIPN--KSNKD 161

Query: 155 LN-LGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRA 213
           LN L F VM ++ +                                 AL+LLR+   S  
Sbjct: 162 LNLLSFPVMQDHHHH--------------------------------ALELLRSNGVSSR 189

Query: 214 GLDHFIPTPMPDSNTLFSS--GFP-LQDIKPA-ATLSFSIDQANRFG---------IQDN 260
           G++ F+P  M DSN++  S  GFP + D K +   LSFSID     G          QDN
Sbjct: 190 GMNTFLPGQMMDSNSVLYSSLGFPTMPDYKQSNNNLSFSIDHHQGIGHNTINSNQRAQDN 249

Query: 261 ---IGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMF---GGGSW 309
              +   SR+ FPF ++K+LS  STT+   H N        YWNGMF   GG SW
Sbjct: 250 NDDMNGASRVLFPFSDMKELS--STTQEKSHGNN------TYWNGMFSNTGGSSW 296

Transcription factor specifically involved in the maternal control of seed germination. Regulates transcription by binding to a 5'-AA[AG]G-3' consensus core sequence. May ensure the inactivity of a component that would be activated to trigger germination as a consequence of red light perception.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZPY0|DOF25_ARATH Dof zinc finger protein DOF2.5 OS=Arabidopsis thaliana GN=DOF2.5 PE=2 SV=3

 Score =  213 bits (542), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 169/393 (43%), Positives = 215/393 (54%), Gaps = 108/393 (27%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVV-----SNTCNSSSSSRPPML----------------- 38
           MDA KW Q F E+  VK ME+++     ++  N++S++RP  +                 
Sbjct: 1   MDATKWTQGFQEMMNVKPMEQIMIPNNNTHQPNTTSNARPNTILTSNGVSTAGATVSGVS 60

Query: 39  ----------ERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSL 88
                     ERKARPQE+LNCPRCNSTNTKFCYYNNYSLTQPRYFCK CRRYWTEGGSL
Sbjct: 61  NNNNNTAVVAERKARPQEKLNCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSL 120

Query: 89  RNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLSHFSSHENPKI 148
           RNVPVGG SRKNKRS SSS++    +  ++          +PDLNPP L  FS+  + K 
Sbjct: 121 RNVPVGGSSRKNKRSSSSSSSNILQTIPSS----------LPDLNPPIL--FSNQIHNKS 168

Query: 149 LKGGQDLN-LGFQVM---HNNANDMSQYADHPAVASKAETNTTSNDNINNNMSP------ 198
               QDLN L F VM   H++   MSQ+   P +          N NI +   P      
Sbjct: 169 KGSSQDLNLLSFPVMQDQHHHHVHMSQFLQMPKME--------GNGNITHQQQPSSSSSV 220

Query: 199 -------VSALDLLRTG--IASRAGLD-HFIPT-PMPDSNTLF--SSGFP-LQDIKPAAT 244
                  VSAL+LLRTG  ++SR+G++  F+P+  M DSNT+   SSGFP + D KP + 
Sbjct: 221 YGSSSSPVSALELLRTGVNVSSRSGINSSFMPSGSMMDSNTVLYTSSGFPTMVDYKP-SN 279

Query: 245 LSFSIDQANRFGIQDNIGNGS-----------RLFFPFG-ELKQLSSASTTEVDHHSNKG 292
           LSFS D     G+  N  N S           R+ FPFG ++K+LSS+ T EVDH  N+ 
Sbjct: 280 LSFSTDHQ---GLGHNSNNRSEALHSDHHQQGRVLFPFGDQMKELSSSITQEVDHDDNQQ 336

Query: 293 TST------------STGYWNGMF----GGGSW 309
             +            + GYW+GMF    GG SW
Sbjct: 337 QKSHGNNNNNNNSSPNNGYWSGMFSTTGGGSSW 369

Transcription factor specifically involved in the maternal control of seed germination. Regulates transcription by binding to a 5'-AA[AG]G-3' consensus core sequence. May ensure the activation of a component that would trigger germination as a consequence of red light perception.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LAP8|DOF46_ARATH Dof zinc finger protein DOF4.6 OS=Arabidopsis thaliana GN=DOF4.6 PE=2 SV=2

 Score =  184 bits (468), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 143/374 (38%), Positives = 188/374 (50%), Gaps = 98/374 (26%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPML-------ERKARPQ--EQLNCP 51
           MD A+WPQ       VK +EE+V+NTC                  ERKARP+  + +NCP
Sbjct: 1   MDTAQWPQEIV----VKPLEEIVTNTCPKPQPQPLQPQQPPSVGGERKARPEKDQAVNCP 56

Query: 52  RCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAA 111
           RCNSTNTKFCYYNNYSLTQPRYFCK CRRYWTEGGSLRN+PVGGGSRKNKRS SSS+  +
Sbjct: 57  RCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNIPVGGGSRKNKRSHSSSSDIS 116

Query: 112 SSSNNNNNNNNNYNKLIIPDLNPPSLSHFSSH--------------ENPKILKGG-QDLN 156
           ++ +++                P +  H S H              +NPK L+   QDLN
Sbjct: 117 NNHSDST--------------QPATKKHLSDHHHHLMSMSQQGLTGQNPKFLETTQQDLN 162

Query: 157 LGFQ---VMHNNANDM----------SQYADHPAVASKAETNTTSNDNINNNMSPVSALD 203
           LGF    ++  N  D+          S   ++P + S      T            S+LD
Sbjct: 163 LGFSPHGMIRTNFTDLIHNIGNNTNKSNNNNNPLIVSSCSAMAT------------SSLD 210

Query: 204 LLR-TGIASRAGLDHFIPTPMPDSNTLFSSGFPLQD-IKPAAT----LSFSIDQANRFGI 257
           L+R       +    F+  P+ + +   S GF +QD  KP  T    L FS+D  +  G 
Sbjct: 211 LIRNNSNNGNSSNSSFMGFPVHNQDPA-SGGFSMQDHYKPCNTNTTLLGFSLDHHHNNGF 269

Query: 258 Q-------------DNIGNGSRLFFPFGELKQ-LSSASTT---EVDHHSNKGT-----ST 295
                         D++ NG R  FPF +LK  +SS+S T   +++ H  +G+     +T
Sbjct: 270 HGGFQGGEEGGEGGDDV-NG-RHLFPFEDLKLPVSSSSATINVDINEHQKRGSGSDAAAT 327

Query: 296 STGYWNGMFGGGSW 309
           S GYW GM  GGSW
Sbjct: 328 SGGYWTGMLSGGSW 341

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

>sp|Q84JQ8|DOF18_ARATH Dof zinc finger protein DOF1.8 OS=Arabidopsis thaliana GN=DOF1.8 PE=2 SV=1

 Score =  152 bits (383), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 135/355 (38%), Positives = 187/355 (52%), Gaps = 68/355 (19%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRP---PMLERKARPQ--EQLNCPRCNS 55
           MD AKWPQ F     VK M E+V+NTC    S+ P     +ERKARP+  + LNCPRCNS
Sbjct: 1   MDTAKWPQEF----VVKPMNEIVTNTCLKQQSNPPSPATPVERKARPEKDQALNCPRCNS 56

Query: 56  TNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSN 115
            NTKFCYYNNYSLTQPRYFCK CRRYWT GGSLRN+PVGGG RKNKRS S+S++++ SS+
Sbjct: 57  LNTKFCYYNNYSLTQPRYFCKDCRRYWTAGGSLRNIPVGGGVRKNKRSSSNSSSSSPSSS 116

Query: 116 NNNNN----NNNYNKLIIPDLNPPSLSHFSSHENPKILKGG-------QDLNL----GFQ 160
           +++      NNN     +P LNP      ++         G       +DLNL    GF 
Sbjct: 117 SSSKKPLFANNNTPTPPLPHLNPKIGEAAATKVQDLTFSQGFGNAHEVKDLNLAFSQGFG 176

Query: 161 VMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIP 220
           + HN+ + + ++     V S +  N       N  +S  S+L+LL  GI+S +   +  P
Sbjct: 177 IGHNHHSSIPEFLQ--VVPSSSMKN-------NPLVSTSSSLELL--GISSSSASSNSRP 225

Query: 221 TPMP-----DSNTLFSSGFPL------QDIKPAATLSFSIDQANRFGIQDNIG--NGSRL 267
             M      DS+   +SGF L      + ++PA  L FS+D  +    ++     N  R 
Sbjct: 226 AFMSYPNVHDSSVYTASGFGLSYPQFQEFMRPA--LGFSLDGGDPLRQEEGSSGTNNGRP 283

Query: 268 FFPFGELKQLSSAST-----------------TEVDHHSNKGTS-TSTGYWNGMF 304
             PF  L +L  +S+                 ++ +H   +G +  S G+W+GM 
Sbjct: 284 LLPFESLLKLPVSSSSTNSGGNGNLKENNDEHSDHEHEKEEGEADQSVGFWSGML 338

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M161|DOF41_ARATH Dof zinc finger protein DOF4.1 OS=Arabidopsis thaliana GN=DOF4.1 PE=2 SV=2

 Score =  129 bits (324), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 96/278 (34%), Positives = 124/278 (44%), Gaps = 54/278 (19%)

Query: 37  MLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGG 96
           M     RPQE  NCPRCNS+NTKFCYYNNYSL QPRY CK+CRRYWTEGGSLRNVPVGGG
Sbjct: 57  MTTMSTRPQEPRNCPRCNSSNTKFCYYNNYSLAQPRYLCKSCRRYWTEGGSLRNVPVGGG 116

Query: 97  SRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSL--SHFSSHENPKILKGGQD 154
           SRKNK+    +++ +SS+ N            +PDLNPP +  S  SS    K  +   D
Sbjct: 117 SRKNKKLPFPNSSTSSSTKN------------LPDLNPPFVFTSSASSSNPSKTHQNNND 164

Query: 155 LNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAG 214
           L+L F     +      Y            N           +P+  +         R  
Sbjct: 165 LSLSFSSPMQDKRAQGHYGHFSEQVVTGGQNCLF-------QAPMGMIQF-------RQE 210

Query: 215 LDHFIPTPMPDSNTLFSSGFPLQDIKPAATLSFSIDQ-ANRFGIQDNI---GNGSRLFFP 270
            DH                       P   L FS+D+     G  DN      GS++ +P
Sbjct: 211 YDH---------------------EHPKKNLGFSLDRNEEEIGNHDNFVVNEEGSKMMYP 249

Query: 271 FGELKQLSSASTTEVDHHSNKGT-STSTGYWNGMFGGG 307
           +G+ +          D  + K    +S   W+G+  GG
Sbjct: 250 YGDHEDRQQHHHVRHDDGNKKREGGSSNELWSGIILGG 287

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

>sp|Q84TE9|DOF53_ARATH Dof zinc finger protein DOF5.3 OS=Arabidopsis thaliana GN=DOF5.3 PE=2 SV=1

 Score =  126 bits (317), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/71 (76%), Positives = 62/71 (87%)

Query: 38  LERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGS 97
           + R   P+  L CPRC+STNTKFCYYNNYSLTQPRYFCK+CRRYWT+GG+LRN+PVGGG 
Sbjct: 45  VTRPQPPELALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGC 104

Query: 98  RKNKRSISSSA 108
           RKNKRS SS+A
Sbjct: 105 RKNKRSTSSAA 115

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

>sp|O24463|PBF_MAIZE Dof zinc finger protein PBF OS=Zea mays GN=PBF PE=1 SV=1

 Score =  124 bits (312), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 61/114 (53%), Positives = 79/114 (69%), Gaps = 16/114 (14%)

Query: 39  ERKARPQ--EQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGG 96
           ERK RPQ  E L CPRC+S NTKFCYYNNYS++QPRYFCK CRRYWT GG+LRNVP+GGG
Sbjct: 49  ERKPRPQLPEALKCPRCDSNNTKFCYYNNYSMSQPRYFCKACRRYWTHGGTLRNVPIGGG 108

Query: 97  SRKNKRS------------ISSSAAAASSSNNNNNNNNNYNK--LIIPDLNPPS 136
            RKNK +             S++ A  S S N +++N + NK  +++P++  P+
Sbjct: 109 CRKNKHASRFVLGSHTSSSSSATYAPLSPSTNASSSNMSINKHMMMVPNMTMPT 162

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence. May enhance the DNA binding of the bZIP transcription factor Opaque-2 to O2 binding site elements.

Zea mays (taxid: 4577)

>sp|Q9M2U1|DOF36_ARATH Dof zinc finger protein DOF3.6 OS=Arabidopsis thaliana GN=DOF3.6 PE=1 SV=2

 Score =  123 bits (309), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/88 (65%), Positives = 67/88 (76%), Gaps = 6/88 (6%)

Query: 30  SSSSRPPMLERKAR------PQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWT 83
           SS +R   +  +AR      P+  LNCPRC+STNTKFCY+NNYSLTQPR+FCKTCRRYWT
Sbjct: 52  SSQARVNSMVERARIAKVPLPEAALNCPRCDSTNTKFCYFNNYSLTQPRHFCKTCRRYWT 111

Query: 84  EGGSLRNVPVGGGSRKNKRSISSSAAAA 111
            GGSLRNVPVGGG R+NKRS S S +  
Sbjct: 112 RGGSLRNVPVGGGFRRNKRSKSRSKSTV 139

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence. Enhances the DNA binding of OBF transcription factors to OCS elements.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1E6|DOF32_ARATH Dof zinc finger protein DOF3.2 OS=Arabidopsis thaliana GN=DOF3.2 PE=2 SV=1

 Score =  120 bits (300), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 50/76 (65%), Positives = 63/76 (82%)

Query: 34  RPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPV 93
           +P    R A P++ L CPRC+STNTKFCYYNNYSL+QPRYFCK+CRRYWT+GG LRN+P+
Sbjct: 26  KPLSATRPAPPEQSLRCPRCDSTNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGILRNIPI 85

Query: 94  GGGSRKNKRSISSSAA 109
           GG  RK+KRS S++ +
Sbjct: 86  GGAYRKHKRSSSATKS 101

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL6|DOF57_ARATH Dof zinc finger protein DOF5.7 OS=Arabidopsis thaliana GN=DOF5.7 PE=2 SV=1

 Score =  118 bits (296), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 56/96 (58%), Positives = 68/96 (70%), Gaps = 4/96 (4%)

Query: 9   NFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSL 68
           N P    V   +  +S T   S + +PP     A+ Q+ L CPRCNS NTKFCYYNNYSL
Sbjct: 6   NLPSPKPVPKPDHRISGT---SQTKKPPS-SSVAQDQQNLKCPRCNSPNTKFCYYNNYSL 61

Query: 69  TQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSI 104
           +QPR+FCK+CRRYWT GG+LRNVP+GGG RK K+SI
Sbjct: 62  SQPRHFCKSCRRYWTRGGALRNVPIGGGCRKTKKSI 97

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	309
224127967	261	predicted protein [Populus trichocarpa]	0.838	0.992	0.610	7e-80
224064314	228	predicted protein [Populus trichocarpa]	0.731	0.991	0.606	4e-78
225470954	316	PREDICTED: dof zinc finger protein DOF2.	0.935	0.914	0.520	4e-69
224072260	279	f-box family protein [Populus trichocarp	0.838	0.928	0.495	6e-66
359489746	299	PREDICTED: dof zinc finger protein DOF2.	0.880	0.909	0.528	7e-66
351722092	281	Dof17 [Glycine max] gi|112363388|gb|ABI1	0.864	0.950	0.488	7e-66
225426210	288	PREDICTED: dof zinc finger protein DOF4.	0.899	0.965	0.501	1e-65
356560258	266	PREDICTED: dof zinc finger protein DOF3.	0.834	0.969	0.488	7e-64
297745500	297	unnamed protein product [Vitis vinifera]	0.799	0.831	0.498	1e-63
388512131	272	unknown [Lotus japonicus]	0.847	0.963	0.488	2e-60

>gi|224127967|ref|XP_002320208.1| predicted protein [Populus trichocarpa] gi|222860981|gb|EEE98523.1| predicted protein [Populus trichocarpa]

 Score =  303 bits (776), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 179/293 (61%), Positives = 210/293 (71%), Gaps = 34/293 (11%)

Query: 19  MEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 78
           M+E+ SN+C        P +ERK RPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC
Sbjct: 1   MDEMASNSCGR------PGVERKPRPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 54

Query: 79  RRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLS 138
           RRYWTEGGSLRNVPVGGGSRKNKRS SSS A +SS               +PDLNPPSLS
Sbjct: 55  RRYWTEGGSLRNVPVGGGSRKNKRSTSSSVATSSSK--------------LPDLNPPSLS 100

Query: 139 HFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSP 198
           HFSS +NPK    GQDLNL F  M  ++  +S Y + P   ++      S+ +   +   
Sbjct: 101 HFSS-QNPKSTHEGQDLNLAFPAMQ-DSQGISHYTEVPKTENRNNNQHNSSSSPYTSSP- 157

Query: 199 VSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSS-GFPLQDIKPAATLSFSID-QANRFG 256
           +SA++LLR+G ASR GL+ FIPTPMPDSNTL+SS GFPLQ+++P  TLSF  D   +R+G
Sbjct: 158 ISAMELLRSGFASR-GLNTFIPTPMPDSNTLYSSGGFPLQELRP--TLSFPADGLGSRYG 214

Query: 257 IQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW 309
           IQ+N G   RL FPFGELKQLSS +T+EVD   NKG   S+GYWNGMFGGGSW
Sbjct: 215 IQENSG---RLLFPFGELKQLSS-TTSEVDQ--NKGQGGSSGYWNGMFGGGSW 261

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224064314|ref|XP_002301420.1| predicted protein [Populus trichocarpa] gi|222843146|gb|EEE80693.1| predicted protein [Populus trichocarpa]

 Score =  297 bits (760), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 176/290 (60%), Positives = 201/290 (69%), Gaps = 64/290 (22%)

Query: 22  VVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRY 81
           + SNTC        P+LERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRY
Sbjct: 1   MTSNTCGR------PVLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRY 54

Query: 82  WTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLSHFS 141
           WTEGGSLRNVPVGGGSRKNKRS SSS AA+++ +             +PDLNPP+LSHFS
Sbjct: 55  WTEGGSLRNVPVGGGSRKNKRSTSSSVAASAAPSK------------LPDLNPPNLSHFS 102

Query: 142 SHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNMSPVSA 201
           S +NPK    GQDLNL F  M ++                                   A
Sbjct: 103 S-QNPKSAHEGQDLNLAFPAMQDS----------------------------------QA 127

Query: 202 LDLLRTGIASRAGLDHFIPTPMPDSNTLFSS-GFPLQDIKPAATLSFSID-QANRFGIQD 259
           L+LLR+GIASR GL+ FIPTPMPDSNTL+SS GFPLQ++KP  TLSFS+D   +R+G+Q+
Sbjct: 128 LELLRSGIASR-GLNSFIPTPMPDSNTLYSSGGFPLQELKP--TLSFSLDGLGSRYGVQE 184

Query: 260 NIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW 309
           + G   RL FPFGELKQLS  ST EVD +  +GTS STGYWNGMFGGGSW
Sbjct: 185 HNG---RLLFPFGELKQLS--STNEVDQNKGQGTS-STGYWNGMFGGGSW 228

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470954|ref|XP_002266221.1| PREDICTED: dof zinc finger protein DOF2.5 isoform 1 [Vitis vinifera] gi|147833319|emb|CAN64100.1| hypothetical protein VITISV_008726 [Vitis vinifera]

 Score =  267 bits (683), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 164/315 (52%), Positives = 221/315 (70%), Gaps = 26/315 (8%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQ--EQLNCPRCNSTNT 58
           M+ A+WPQ    +G  K MEE +S + NS  +   P+LERKARPQ  + +NCPRC+STNT
Sbjct: 1   MNNAQWPQE-NSIGEAKDMEEAISISINSDHTCSKPVLERKARPQKDQAVNCPRCSSTNT 59

Query: 59  KFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNN 118
           KFCYYNNYSLTQPRYFCKTCRRYWTEGG+LRNVPVGGGSRKNKRSI++S++ +SS  +++
Sbjct: 60  KFCYYNNYSLTQPRYFCKTCRRYWTEGGTLRNVPVGGGSRKNKRSITTSSSLSSSLTSSS 119

Query: 119 NNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAV 178
           +      K  +PDLNPP LSHFSS ENP+I +   DLNL F  +    + +SQ+A+ P +
Sbjct: 120 S-----FKTHLPDLNPPILSHFSS-ENPRIHE-PHDLNLAFP-LPQYYHGISQFAEVPKI 171

Query: 179 ASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPD-SNTLFSSGFPLQ 237
            +    +++S+ + ++ +S +SAL+LL+TGI SR GL  F+P PMPD S+TLF+SGFPLQ
Sbjct: 172 ENN-NCSSSSSSSSSSTLSHLSALELLKTGITSR-GLSSFVPAPMPDSSSTLFTSGFPLQ 229

Query: 238 DIKPAATLSFSIDQANRFGI--QDNIGNGSRLFFPFGELKQLSSASTTEVDH-----HSN 290
           + K    LSFS   A+  G+  Q N+    R+ FPFGE+KQL + ++T VDH     +  
Sbjct: 230 EFK-VPHLSFS---AHLHGVDPQQNMSTTGRVLFPFGEVKQLPATTSTGVDHDCSGNNKG 285

Query: 291 KGTSTSTGYW-NGMF 304
           +G+  +  YW NGMF
Sbjct: 286 QGSPATAAYWNNGMF 300

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072260|ref|XP_002303678.1| f-box family protein [Populus trichocarpa] gi|222841110|gb|EEE78657.1| f-box family protein [Populus trichocarpa]

 Score =  257 bits (656), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 163/329 (49%), Positives = 204/329 (62%), Gaps = 70/329 (21%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQEQ--LNCPRCNSTNT 58
           MD A+WPQ       VK +EE+V+NTC      +PP LERKARPQ++  LNCPRCNSTNT
Sbjct: 1   MDTAQWPQEI----VVKPIEEIVTNTC-----PKPPALERKARPQKEQALNCPRCNSTNT 51

Query: 59  KFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNN 118
           KFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRN+PVGGGSRKNKRS +SS++++       
Sbjct: 52  KFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNIPVGGGSRKNKRSSASSSSSSKK----- 106

Query: 119 NNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAV 178
                     +PDL  P+    +S +NPKI + GQDLNL F                 ++
Sbjct: 107 ----------LPDLITPTSLSQTSTQNPKIHE-GQDLNLAFPSTQ-------------SI 142

Query: 179 ASKAETNTTSNDNINNNMSPV-------------SALDLLRTGIASRAGLDHFIPTPMPD 225
            S +E     + N NNN +P+             SAL+LL TGI+SR GL+ F P P+ D
Sbjct: 143 RSFSELIQVPSINENNNKNPISSSTSASTTTSQLSALELL-TGISSR-GLNSF-PMPVQD 199

Query: 226 SNTLFSSGFPLQDIKPAATLSFSID-----QANRFGIQDNIGNGSRLFFPFGELKQLSSA 280
            +TL++S FPL D KP  TL+FS+D       +  G+Q+  G   RL FPF +LKQ+S  
Sbjct: 200 PSTLYTSSFPLHDFKP--TLNFSLDGLGSCYGSLQGVQETNG---RLLFPFEDLKQVS-- 252

Query: 281 STTEVDHHSNKGTSTSTGYWNGMFGGGSW 309
           ST +++H  NK    STGYW GM GGGSW
Sbjct: 253 STADIEH--NKEHGDSTGYWTGMLGGGSW 279

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489746|ref|XP_003633971.1| PREDICTED: dof zinc finger protein DOF2.5 isoform 2 [Vitis vinifera]

 Score =  256 bits (655), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 157/297 (52%), Positives = 211/297 (71%), Gaps = 25/297 (8%)

Query: 19  MEEVVSNTCNSSSSSRPPMLERKARPQ--EQLNCPRCNSTNTKFCYYNNYSLTQPRYFCK 76
           MEE +S + NS  +   P+LERKARPQ  + +NCPRC+STNTKFCYYNNYSLTQPRYFCK
Sbjct: 1   MEEAISISINSDHTCSKPVLERKARPQKDQAVNCPRCSSTNTKFCYYNNYSLTQPRYFCK 60

Query: 77  TCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPS 136
           TCRRYWTEGG+LRNVPVGGGSRKNKRSI++S++ +SS  ++++      K  +PDLNPP 
Sbjct: 61  TCRRYWTEGGTLRNVPVGGGSRKNKRSITTSSSLSSSLTSSSS-----FKTHLPDLNPPI 115

Query: 137 LSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSNDNINNNM 196
           LSHFSS ENP+I +   DLNL F  +    + +SQ+A+ P + +    +++S+ + ++ +
Sbjct: 116 LSHFSS-ENPRIHE-PHDLNLAFP-LPQYYHGISQFAEVPKIENN-NCSSSSSSSSSSTL 171

Query: 197 SPVSALDLLRTGIASRAGLDHFIPTPMPD-SNTLFSSGFPLQDIKPAATLSFSIDQANRF 255
           S +SAL+LL+TGI SR GL  F+P PMPD S+TLF+SGFPLQ+ K    LSFS   A+  
Sbjct: 172 SHLSALELLKTGITSR-GLSSFVPAPMPDSSSTLFTSGFPLQEFK-VPHLSFS---AHLH 226

Query: 256 GI--QDNIGNGSRLFFPFGELKQLSSASTTEVDH-----HSNKGTSTSTGYW-NGMF 304
           G+  Q N+    R+ FPFGE+KQL + ++T VDH     +  +G+  +  YW NGMF
Sbjct: 227 GVDPQQNMSTTGRVLFPFGEVKQLPATTSTGVDHDCSGNNKGQGSPATAAYWNNGMF 283

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351722092|ref|NP_001236720.1| Dof17 [Glycine max] gi|112363388|gb|ABI16018.1| Dof17 [Glycine max]

 Score =  256 bits (655), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 149/305 (48%), Positives = 196/305 (64%), Gaps = 38/305 (12%)

Query: 19  MEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 78
           ME +  N+C        P+LE+K RPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC
Sbjct: 1   MEGMAPNSCAR------PVLEKKTRPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 54

Query: 79  RRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPP--- 135
           RRYWTEGGSLRNVPVGGGSRKNK+ +S +A+++SS               +PDLNPP   
Sbjct: 55  RRYWTEGGSLRNVPVGGGSRKNKK-VSVTASSSSSPK-------------VPDLNPPINL 100

Query: 136 -SLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYAD-HPAVASKAETNTTSNDNIN 193
            S+S  SS +NPKI+ GGQDLNL F  M    + M  Y +   +  +    +  ++ + +
Sbjct: 101 SSVSAISS-QNPKIMHGGQDLNLAFPAMEKYHHGMPPYVELQNSDTTTTHHHHQTSSSCS 159

Query: 194 NNMSPVSALDLLRTGIASRAGLDHFIPTP--MP---DSNTLFSSGFPLQDIKPAATLSFS 248
              + +SAL+LLR+ +ASR GL+ + P+   MP   +SN L+SSGFP+Q++KP+   S +
Sbjct: 160 APPASLSALELLRSSMASR-GLNPYAPSSSLMPNSTNSNALYSSGFPMQEVKPSLNFSSA 218

Query: 249 IDQANR----FGIQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMF 304
               NR      IQ+    G RL FPFG++KQLS+A+  +   H+ +    STGYW GM 
Sbjct: 219 DGMGNRSYDHHQIQER--GGGRLLFPFGDVKQLSAAAGADQVEHNKEQQGNSTGYWTGMI 276

Query: 305 GGGSW 309
           G G+W
Sbjct: 277 GEGTW 281

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426210|ref|XP_002262703.1| PREDICTED: dof zinc finger protein DOF4.6-like [Vitis vinifera]

 Score =  256 bits (653), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 160/319 (50%), Positives = 213/319 (66%), Gaps = 41/319 (12%)

Query: 1   MDAAKWPQNFPEVGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQEQ--LNCPRCNSTNT 58
           MD A+WPQ       VK +EE+V+NTC        P LE++ARPQ++  LNCPRCNSTNT
Sbjct: 1   MDTAQWPQEI----VVKPLEEIVTNTCPK------PALEKRARPQKEQALNCPRCNSTNT 50

Query: 59  KFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNN 118
           KFCYYNNYSL+QPRYFCK CRRYWTEGGSLRN+PVGGGSRKNKRS SSS++++SS+++  
Sbjct: 51  KFCYYNNYSLSQPRYFCKACRRYWTEGGSLRNIPVGGGSRKNKRSSSSSSSSSSSASSKK 110

Query: 119 NNNNNYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAV 178
                     +PDL PP  S  SS +NPKI + GQDLNL F     +   +S++   P++
Sbjct: 111 ----------LPDLVPPGCSQ-SSAQNPKIHE-GQDLNLSFPAAQ-DFRSVSEFMQMPSI 157

Query: 179 ----ASKAETNTTSNDNINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPDSNTLFSSGF 234
                +   ++ +   + ++  S +SAL+LL TGI SR GL+ F+P P+PD NT++++GF
Sbjct: 158 ENSNNNTNNSSKSHITSTSSTSSHLSALELL-TGITSR-GLNSFMPMPIPDPNTVYTTGF 215

Query: 235 PLQDIKPAATLSFSID-QANRFG-IQDNIGNGS-RLFFPFGELKQLSSASTTEVDH-HSN 290
           P+Q+ KP  TL+FS+D   + +G IQ   G+ S RL FPF +LKQ+SS +    DH    
Sbjct: 216 PMQEFKP--TLNFSLDGLGSGYGSIQGVQGSSSGRLLFPFEDLKQVSSTA----DHIEQT 269

Query: 291 KGTSTSTGYWNGMFGGGSW 309
           +    STGYW GM GGGSW
Sbjct: 270 REQGDSTGYWTGMLGGGSW 288

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560258|ref|XP_003548410.1| PREDICTED: dof zinc finger protein DOF3.7-like [Glycine max]

 Score =  250 bits (638), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 146/299 (48%), Positives = 184/299 (61%), Gaps = 41/299 (13%)

Query: 19  MEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 78
           ME +  N+C        P++E+KARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC
Sbjct: 1   MEGMAPNSCAR------PVVEKKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 54

Query: 79  RRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNPPSLS 138
           RRYWTEGGSLRNVPVGGGSRKNK+    S  A+SS               +PDLNPP+ S
Sbjct: 55  RRYWTEGGSLRNVPVGGGSRKNKK---VSVTASSSPK-------------VPDLNPPNHS 98

Query: 139 HFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAET-NTTSNDNINNNMS 197
             SSH NPKI+ GGQDLNL F  M        +Y  H       E  N+ +    +++ +
Sbjct: 99  AISSH-NPKIMHGGQDLNLAFPAME-------KYHHHGMSPYNVEMQNSNTTTTHHHHQT 150

Query: 198 PVSALDLLRTGIASRAGLDHFIP--TPMPDSN-----TLFSSGFPLQDIKPAATLSFSID 250
             S+L+LLR+ +ASR GL+ + P  + MP+S       L+ SGFP+Q++KP+   S S+D
Sbjct: 151 SPSSLELLRSSMASR-GLNPYAPNSSLMPNSTNNNNNALYPSGFPMQEVKPSLNFS-SVD 208

Query: 251 QANRFGIQDNIGNGSRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGSW 309
                   D    G R+ FPFG++KQLS+A+    D    +    STGYW GM G G+W
Sbjct: 209 GIGNNRSYDQERGGGRVLFPFGDVKQLSAAAGA-ADQVEQQQQGNSTGYWTGMIGEGTW 266

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745500|emb|CBI40580.3| unnamed protein product [Vitis vinifera]

 Score =  249 bits (636), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 149/299 (49%), Positives = 193/299 (64%), Gaps = 52/299 (17%)

Query: 13  VGGVKAMEEVVSNTCNSSSSSRPPMLERKARPQ--EQLNCPRCNSTNTKFCYYNNYSLTQ 70
           +G  K MEE +S + NS  +   P+LERKARPQ  + +NCPRC+STNTKFCYYNNYSLTQ
Sbjct: 8   IGEAKDMEEAISISINSDHTCSKPVLERKARPQKDQAVNCPRCSSTNTKFCYYNNYSLTQ 67

Query: 71  PRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIP 130
           PRYFCKTCRRYWTEGG+LRNVPVGGGSRKNKRSI++S++ +SS  ++++   +     +P
Sbjct: 68  PRYFCKTCRRYWTEGGTLRNVPVGGGSRKNKRSITTSSSLSSSLTSSSSFKTH-----LP 122

Query: 131 DLNPPSLSHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAETNTTSND 190
           DLNPP LSHFSS ENP+I +   DLNL F  +    + +SQ+A                 
Sbjct: 123 DLNPPILSHFSS-ENPRIHE-PHDLNLAFP-LPQYYHGISQFA----------------- 162

Query: 191 NINNNMSPVSALDLLRTGIASRAGLDHFIPTPMPD-SNTLFSSGFPLQDIKPAATLSFSI 249
                       +LL+TGI SR GL  F+P PMPD S+TLF+SGFPLQ+ K    LSFS 
Sbjct: 163 ------------ELLKTGITSR-GLSSFVPAPMPDSSSTLFTSGFPLQEFK-VPHLSFS- 207

Query: 250 DQANRFGI--QDNIGNGSRLFFPFGELKQLSSASTTEVDH-----HSNKGTSTSTGYWN 301
             A+  G+  Q N+    R+ FPFGE+KQL + ++T VDH     +  +G+  +  YWN
Sbjct: 208 --AHLHGVDPQQNMSTTGRVLFPFGEVKQLPATTSTGVDHDCSGNNKGQGSPATAAYWN 264

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388512131|gb|AFK44127.1| unknown [Lotus japonicus]

 Score =  239 bits (609), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 147/301 (48%), Positives = 194/301 (64%), Gaps = 39/301 (12%)

Query: 19  MEEVVSNTCNSSSSSRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 78
           ME +  N+C + +     ++E+K RPQEQ+NCPRCNSTNTKFCYYNNYSLTQPRYFCKTC
Sbjct: 1   MEGIDPNSCVNRT-----VMEKKTRPQEQINCPRCNSTNTKFCYYNNYSLTQPRYFCKTC 55

Query: 79  RRYWTEGGSLRNVPVGGGSRKNKRSISSSAAAASSSNNNNNNNNNYNKLIIPDLNP-PSL 137
           RRYWTEGGSLRNVPVGGGSRKNK+ ++SSAAAA+++  ++          IPDLNP P+ 
Sbjct: 56  RRYWTEGGSLRNVPVGGGSRKNKKVLTSSAAAAAAAAASSKA--------IPDLNPQPTT 107

Query: 138 --SHFSSHENPKILKGGQDLNLGFQVMHNNANDMSQYADHPAVASKAET-NTTSNDNINN 194
             S  S+ +NPK + GGQDLNL F  M N       Y  H  +    E  N   + + + 
Sbjct: 108 LSSSVSNSQNPK-MHGGQDLNLAFPPMEN-------YHHHHGMVPYVEMHNGGDHSSSSA 159

Query: 195 NMSPVSALDLLRTGIASRAGLDHFIP--TPMPDSNTLFSSGFPLQDIKPAATLSFSIDQA 252
             + +SAL+LLR  +ASR G++ + P  + MP++N+L+ SGFP+Q++KP+  L FS+D  
Sbjct: 160 PTNSLSALELLRYSMASR-GMNPYAPNNSLMPNTNSLYPSGFPMQEVKPS--LGFSVDGI 216

Query: 253 NRFGIQDNI---GNGSRLFFPFGE-LKQLSSASTTEVDHHSNKGTSTSTGYWNGMFGGGS 308
                +  +   G G RL FPFG+ +KQLS+    +     NK    STGYW GM G GS
Sbjct: 217 GNRSYEHQVQESGGGGRLLFPFGDHVKQLSAEQVEQ-----NKEQGNSTGYWTGMMGEGS 271

Query: 309 W 309
           W
Sbjct: 272 W 272

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	309
TAIR|locus:2039959	369	DAG2 "DOF AFFECTING GERMINATIO	0.867	0.726	0.460	7.4e-69
TAIR|locus:2079492	324	DAG1 "dof affecting germinatio	0.776	0.740	0.501	6.3e-53
TAIR|locus:2134981	342	AT4G24060 [Arabidopsis thalian	0.828	0.748	0.397	2.9e-50
TAIR|locus:2019499	352	AT1G64620 [Arabidopsis thalian	0.880	0.772	0.396	2.5e-43
TAIR|locus:2134658	294	AT4G00940 [Arabidopsis thalian	0.359	0.377	0.552	9.2e-36
TAIR|locus:2032153	325	AT1G28310 [Arabidopsis thalian	0.537	0.510	0.390	5.3e-30
TAIR|locus:2040746	330	DOF2.4 "DNA binding with one f	0.200	0.187	0.774	2.5e-28
TAIR|locus:2144030	257	TMO6 "TARGET OF MONOPTEROS 6"	0.207	0.249	0.796	4.5e-27
TAIR|locus:2155755	316	AT5G65590 [Arabidopsis thalian	0.297	0.291	0.572	1.5e-26
TAIR|locus:2085697	245	DOF6 "DOF transcription factor	0.226	0.285	0.7	1.9e-26

TAIR|locus:2039959 DAG2 "DOF AFFECTING GERMINATION 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 553 (199.7 bits), Expect = 7.4e-69, Sum P(3) = 7.4e-69
 Identities = 144/313 (46%), Positives = 171/313 (54%)

Query:     7 PQNFPEVGGVKAMEEVVSNTCNXXXXXRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNY 66
             P       GV      VS   N        + ERKARPQE+LNCPRCNSTNTKFCYYNNY
Sbjct:    40 PNTILTSNGVSTAGATVSGVSNNNNNTAV-VAERKARPQEKLNCPRCNSTNTKFCYYNNY 98

Query:    67 SLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSIXXXXXXXXXXXXXXXXXXXYNK 126
             SLTQPRYFCK CRRYWTEGGSLRNVPVGG SRKNKRS                       
Sbjct:    99 SLTQPRYFCKGCRRYWTEGGSLRNVPVGGSSRKNKRSSSSSSSNILQTIPSS-------- 150

Query:   127 LIIPDLNPPSLSHFSSHENPKILKGGQDLNL-GFQVM---HNNANDMSQYADHPAVASKA 182
               +PDLNPP L  FS+  + K     QDLNL  F VM   H++   MSQ+   P +    
Sbjct:   151 --LPDLNPPIL--FSNQIHNKSKGSSQDLNLLSFPVMQDQHHHHVHMSQFLQMPKMEGNG 206

Query:   183 EXX-----XXXXXXXXXXMSPVSALDLLRTGI--ASRAGLDH-FIPT-PMPDSNTLF--S 231
                                SPVSAL+LLRTG+  +SR+G++  F+P+  M DSNT+   S
Sbjct:   207 NITHQQQPSSSSSVYGSSSSPVSALELLRTGVNVSSRSGINSSFMPSGSMMDSNTVLYTS 266

Query:   232 SGFP-LQDIKPAATLSFSIDQANRFGIQDNIGNGS-----------RLFFPFGE-LKQLS 278
             SGFP + D KP+  LSFS D     G+  N  N S           R+ FPFG+ +K+LS
Sbjct:   267 SGFPTMVDYKPS-NLSFSTDHQ---GLGHNSNNRSEALHSDHHQQGRVLFPFGDQMKELS 322

Query:   279 SASTTEVDHHSNK 291
             S+ T EVDH  N+
Sbjct:   323 SSITQEVDHDDNQ 335

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0009409 "response to cold" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IMP

GO:0009845 "seed germination" evidence=IMP

GO:0006598 "polyamine catabolic process" evidence=RCA

GO:0009698 "phenylpropanoid metabolic process" evidence=RCA

GO:0042398 "cellular modified amino acid biosynthetic process" evidence=RCA

TAIR|locus:2079492 DAG1 "dof affecting germination 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 548 (198.0 bits), Expect = 6.3e-53, P = 6.3e-53
 Identities = 148/295 (50%), Positives = 175/295 (59%)

Query:    37 MLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGG 96
             M  RKARPQE++NCPRCNSTNTKFCYYNNYSLTQPRYFCK CRRYWTEGGSLRNVPVGG 
Sbjct:    63 METRKARPQEKVNCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNVPVGGS 122

Query:    97 SRKNKRSIXXXXXXXXXXXXXXXXXXXYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLN 156
             SRKNKRS                      KL  PDLNPP L  FSS + P   K  +DLN
Sbjct:   123 SRKNKRS------------STPLASPSNPKL--PDLNPPIL--FSS-QIPN--KSNKDLN 163

Query:   157 L-GFQVMHNNAND-MSQYADHPAVASKAEXXXXXXXXXXXXMSPVSALDLLRT-GIASRA 213
             L  F VM ++ +  MS +   P + +                SPVSAL+LLR+ G++SR 
Sbjct:   164 LLSFPVMQDHHHHGMSHFFHMPKIENN-----NTSSSIYASSSPVSALELLRSNGVSSR- 217

Query:   214 GLDHFIPTPMPDSNT-LFSS-GFP-LQDIKPAAT-LSFSIDQANRFG---------IQDN 260
             G++ F+P  M DSN+ L+SS GFP + D K +   LSFSID     G          QDN
Sbjct:   218 GMNTFLPGQMMDSNSVLYSSLGFPTMPDYKQSNNNLSFSIDHHQGIGHNTINSNQRAQDN 277

Query:   261 IG--NG-SRLFFPFGELKQLSSASTTEVDHHSNKGTSTSTGYWNGMF---GGGSW 309
                 NG SR+ FPF ++K+LSS +T E  H    G +T   YWNGMF   GG SW
Sbjct:   278 NDDMNGASRVLFPFSDMKELSS-TTQEKSH----GNNT---YWNGMFSNTGGSSW 324

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009845 "seed germination" evidence=IMP

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0009639 "response to red or far red light" evidence=IMP

TAIR|locus:2134981 AT4G24060 [Arabidopsis thaliana (taxid:3702)]

 Score = 433 (157.5 bits), Expect = 2.9e-50, Sum P(2) = 2.9e-50
 Identities = 113/284 (39%), Positives = 145/284 (51%)

Query:     1 MDAAKWPQNFPEVGGVKAMEEVVSNTC-----NXXXXXRPPML--ERKARPQEQ--LNCP 51
             MD A+WPQ       VK +EE+V+NTC           +PP +  ERKARP++   +NCP
Sbjct:     1 MDTAQWPQEIV----VKPLEEIVTNTCPKPQPQPLQPQQPPSVGGERKARPEKDQAVNCP 56

Query:    52 RCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSIXXXXXXX 111
             RCNSTNTKFCYYNNYSLTQPRYFCK CRRYWTEGGSLRN+PVGGGSRKNKRS        
Sbjct:    57 RCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNIPVGGGSRKNKRS-HSSSSDI 115

Query:   112 XXXXXXXXXXXXYNKLIIPDLNPPSLSHFS-SHENPKILKGGQ-DLNLGFQ---VMHNNA 166
                            L     +  S+S    + +NPK L+  Q DLNLGF    ++  N 
Sbjct:   116 SNNHSDSTQPATKKHLSDHHHHLMSMSQQGLTGQNPKFLETTQQDLNLGFSPHGMIRTNF 175

Query:   167 NDMSQYADHPAVASKAEXXXXXXXXXXXXMSPVSALDLLRTGIAS-RAGLDHFIPTPMPD 225
              D+     +    +K+                 S+LDL+R    +  +    F+  P+ +
Sbjct:   176 TDLIHNIGNNT--NKSNNNNNPLIVSSCSAMATSSLDLIRNNSNNGNSSNSSFMGFPVHN 233

Query:   226 SNTLFSSGFPLQD-IKPAAT----LSFSIDQANRFGIQDNIGNG 264
              +   S GF +QD  KP  T    L FS+D  +  G       G
Sbjct:   234 QDPA-SGGFSMQDHYKPCNTNTTLLGFSLDHHHNNGFHGGFQGG 276

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2019499 AT1G64620 [Arabidopsis thaliana (taxid:3702)]

 Score = 418 (152.2 bits), Expect = 2.5e-43, Sum P(2) = 2.5e-43
 Identities = 129/325 (39%), Positives = 160/325 (49%)

Query:     1 MDAAKWPQNFPEVGGVKAMEEVVSNTCNXXXXXRPPM----LERKARPQEQ--LNCPRCN 54
             MD AKWPQ F     VK M E+V+NTC       PP     +ERKARP++   LNCPRCN
Sbjct:     1 MDTAKWPQEFV----VKPMNEIVTNTC-LKQQSNPPSPATPVERKARPEKDQALNCPRCN 55

Query:    55 STNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSIXXXXXXXXXX 114
             S NTKFCYYNNYSLTQPRYFCK CRRYWT GGSLRN+PVGGG RKNKRS           
Sbjct:    56 SLNTKFCYYNNYSLTQPRYFCKDCRRYWTAGGSLRNIPVGGGVRKNKRSSSNSSSSSPSS 115

Query:   115 XXXXXXXXXYNKLIIPDLNPPSLSHFSSHENPKILKGG----QDLNL--GFQVMHNNAND 168
                       N    P   PP L H     NPKI +      QDL    GF   H    D
Sbjct:   116 SSSSKKPLFANNNT-P--TPP-LPHL----NPKIGEAAATKVQDLTFSQGFGNAHE-VKD 166

Query:   169 M----SQ-----YADHPAVASKAEXXXXXXXXXXXXMSPVSALDLLRTGIASRAGLDHFI 219
             +    SQ     +  H ++    +            +S  S+L+LL  GI+S +   +  
Sbjct:   167 LNLAFSQGFGIGHNHHSSIPEFLQVVPSSSMKNNPLVSTSSSLELL--GISSSSASSNSR 224

Query:   220 PTPM--P---DSNTLFSSGFPL-----QD-IKPAATLSFSIDQANRFGIQDNIG--NGSR 266
             P  M  P   DS+   +SGF L     Q+ ++PA  L FS+D  +    ++     N  R
Sbjct:   225 PAFMSYPNVHDSSVYTASGFGLSYPQFQEFMRPA--LGFSLDGGDPLRQEEGSSGTNNGR 282

Query:   267 LFFPFGELKQLS-SASTTEVDHHSN 290
                PF  L +L  S+S+T    + N
Sbjct:   283 PLLPFESLLKLPVSSSSTNSGGNGN 307

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2134658 AT4G00940 [Arabidopsis thaliana (taxid:3702)]

 Score = 334 (122.6 bits), Expect = 9.2e-36, Sum P(2) = 9.2e-36
 Identities = 69/125 (55%), Positives = 78/125 (62%)

Query:    37 MLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGG 96
             M     RPQE  NCPRCNS+NTKFCYYNNYSL QPRY CK+CRRYWTEGGSLRNVPVGGG
Sbjct:    57 MTTMSTRPQEPRNCPRCNSSNTKFCYYNNYSLAQPRYLCKSCRRYWTEGGSLRNVPVGGG 116

Query:    97 SRKNKRSIXXXXXXXXXXXXXXXXXXXYNKLIIPDLNPPSL-SHFSSHENP-KILKGGQD 154
             SRKNK+                      N   +PDLNPP + +  +S  NP K  +   D
Sbjct:   117 SRKNKK---------LPFPNSSTSSSTKN---LPDLNPPFVFTSSASSSNPSKTHQNNND 164

Query:   155 LNLGF 159
             L+L F
Sbjct:   165 LSLSF 169

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

TAIR|locus:2032153 AT1G28310 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 5.3e-30, Sum P(2) = 5.3e-30
 Identities = 71/182 (39%), Positives = 95/182 (52%)

Query:    39 ERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSR 98
             ++  +PQ QL CPRC+S+NTKFCYYNNYSL+QPR+FCK C+RYWT GG+LRNVPVGG  R
Sbjct:    32 QQPQQPQPQLKCPRCDSSNTKFCYYNNYSLSQPRHFCKACKRYWTRGGTLRNVPVGGSYR 91

Query:    99 KNKRSIXXXXXXXXXXXXXXXXXXXYNKLIIPDLNPPSLSHFSSHENPKILKGGQDLNLG 158
             KNKR +                    +    P+ NP  +SHFSS  +  +  G  D    
Sbjct:    92 KNKR-VKRPSTATTTTASTVSTTNSSS----PN-NPHQISHFSSMNHHPLFYGLSD---H 142

Query:   159 FQVMHNNANDM-SQYADHPAVASKAEXXXXXXXXXXXXMSPVSALDLLRTGIASRAGLDH 217
                 +NN   + S+++D     S +              S +SAL L   G+  +   DH
Sbjct:   143 MSSCNNNLPMIPSRFSDSSKTCSSS---GLESEFLSSGFSSLSALGL---GLPHQMSHDH 196

Query:   218 FI 219
              I
Sbjct:   197 TI 198

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2040746 DOF2.4 "DNA binding with one finger 2.4" [Arabidopsis thaliana (taxid:3702)]

 Score = 292 (107.8 bits), Expect = 2.5e-28, Sum P(2) = 2.5e-28
 Identities = 48/62 (77%), Positives = 55/62 (88%)

Query:    42 ARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNK 101
             A P+  L CPRC STNTKFCY+NNYSLTQPR+FCKTCRRYWT GG+LRNVPVGGG R+N+
Sbjct:    83 ALPEAALKCPRCESTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNR 142

Query:   102 RS 103
             R+
Sbjct:   143 RT 144

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0010089 "xylem development" evidence=RCA

GO:0044036 "cell wall macromolecule metabolic process" evidence=RCA

TAIR|locus:2144030 TMO6 "TARGET OF MONOPTEROS 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 51/64 (79%), Positives = 57/64 (89%)

Query:    40 RKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRK 99
             R   P+  L CPRC+STNTKFCYYNNYSLTQPRYFCK+CRRYWT+GG+LRN+PVGGG RK
Sbjct:    47 RPQPPELALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGCRK 106

Query:   100 NKRS 103
             NKRS
Sbjct:   107 NKRS 110

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0048364 "root development" evidence=IEP

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

TAIR|locus:2155755 AT5G65590 [Arabidopsis thaliana (taxid:3702)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 55/96 (57%), Positives = 66/96 (68%)

Query:     9 NFPEVGGVKAMEEVVSNTCNXXXXXRPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSL 68
             N P    V   +  +S T       +PP     A+ Q+ L CPRCNS NTKFCYYNNYSL
Sbjct:     6 NLPSPKPVPKPDHRISGTSQTK---KPPS-SSVAQDQQNLKCPRCNSPNTKFCYYNNYSL 61

Query:    69 TQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSI 104
             +QPR+FCK+CRRYWT GG+LRNVP+GGG RK K+SI
Sbjct:    62 SQPRHFCKSCRRYWTRGGALRNVPIGGGCRKTKKSI 97

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2085697 DOF6 "DOF transcription factor 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 49/70 (70%), Positives = 59/70 (84%)

Query:    34 RPPMLERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPV 93
             +P    R A P++ L CPRC+STNTKFCYYNNYSL+QPRYFCK+CRRYWT+GG LRN+P+
Sbjct:    26 KPLSATRPAPPEQSLRCPRCDSTNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGILRNIPI 85

Query:    94 GGGSRKNKRS 103
             GG  RK+KRS
Sbjct:    86 GGAYRKHKRS 95

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

---

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: grail3.0035031801 hypothetical protein (261 aa) (Populus trichocarpa)

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	Length	Definition	E-value
Query	309
pfam02701	63	pfam02701, zf-Dof, Dof domain, zinc finger	2e-39

>gnl|CDD|111583 pfam02701, zf-Dof, Dof domain, zinc finger

 Score =  132 bits (334), Expect = 2e-39
 Identities = 49/63 (77%), Positives = 54/63 (85%)

Query: 43  RPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKR 102
           +P + L CPRC+S NTKFCYYNNY+L QPRYFCK CRRYWT GG+LRNVPVGGG RKNKR
Sbjct: 1   KPDKALKCPRCDSMNTKFCYYNNYNLNQPRYFCKNCRRYWTAGGALRNVPVGGGRRKNKR 60

Query: 103 SIS 105
           S S
Sbjct: 61  SSS 63

The Dof domain is a zinc finger DNA-binding domain, that shows resemblance to the Cys2 zinc finger. Length = 63

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	309
PF02701	63	zf-Dof: Dof domain, zinc finger; InterPro: IPR0038	100.0
TIGR02159	146	PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subu	93.66
PF12760	46	Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int	92.57
COG3677	129	Transposase and inactivated derivatives [DNA repli	92.35
PF03811	36	Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR0	92.19
smart00440	40	ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo	89.34
PF01096	39	TFIIS_C: Transcription factor S-II (TFIIS); InterP	87.13
TIGR01384	104	TFS_arch transcription factor S, archaeal. There h	81.91
PHA02998	195	RNA polymerase subunit; Provisional	80.57

>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=100.00  E-value=3.6e-37  Score=233.65  Aligned_cols=63  Identities=79%  Similarity=1.583  Sum_probs=60.2

Q ss_pred             CCccCCCCCCCCCCCcceeeeccccCCCCcccccccccccccCCccccccCCCCcCCCCCCCC
Q 021641           43 RPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKRSIS  105 (309)
Q Consensus        43 ~p~~~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~GGtlRnvPvGgG~RK~k~sss  105 (309)
                      +|++.++||||+|.||||||||||++.||||||++|+||||+||+|||||||||+||+|+++|
T Consensus         1 ~~~~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG~lRnVPvggg~Rk~k~~~s   63 (63)
T PF02701_consen    1 KPEQPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGGTLRNVPVGGGCRKNKRSSS   63 (63)
T ss_pred             CCccCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcceecCCccCCCcccCCcCCC
Confidence            467779999999999999999999999999999999999999999999999999999999875

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent

>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit

Probab=93.66  E-value=0.041  Score=47.97  Aligned_cols=34  Identities=26%  Similarity=0.819  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCCcceeeeccc--cCCCCccccccccccc
Q 021641           47 QLNCPRCNSTNTKFCYYNNY--SLTQPRYFCKTCRRYW   82 (309)
Q Consensus        47 ~~~CPRC~S~~TKfcyyNNy--~~~QPR~fCk~CrRyW   82 (309)
                      ...||||.|.+|+..  +.+  +.++.-|.|++|+.=+
T Consensus       105 ~~~cp~c~s~~t~~~--s~fg~t~cka~~~c~~c~epf  140 (146)
T TIGR02159       105 SVQCPRCGSADTTIT--SIFGPTACKALYRCRACKEPF  140 (146)
T ss_pred             CCcCCCCCCCCcEee--cCCCChhhHHHhhhhhhCCcH
Confidence            489999999999964  555  4457779999998643

Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.

>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

Probab=92.57  E-value=0.1  Score=36.85  Aligned_cols=29  Identities=41%  Similarity=0.957  Sum_probs=22.4

Q ss_pred             cCCCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641           46 EQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR   80 (309)
Q Consensus        46 ~~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR   80 (309)
                      .+..||+|.+.  ++..+.+    +.+|.|+.|++
T Consensus        17 ~g~~CP~Cg~~--~~~~~~~----~~~~~C~~C~~   45 (46)
T PF12760_consen   17 DGFVCPHCGST--KHYRLKT----RGRYRCKACRK   45 (46)
T ss_pred             CCCCCCCCCCe--eeEEeCC----CCeEECCCCCC
Confidence            34679999998  5544444    78999999986

It may be a zinc-binding beta ribbon domain that could bind DNA.

>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=92.35  E-value=0.091  Score=44.90  Aligned_cols=35  Identities=37%  Similarity=0.782  Sum_probs=28.0

Q ss_pred             CCCCCCCCCCcceeeeccccCCCCccccccccccccc
Q 021641           48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTE   84 (309)
Q Consensus        48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~   84 (309)
                      ..||+|.+.+  +-=+.-+.....||.|++|++-|+.
T Consensus        31 ~~cP~C~s~~--~~k~g~~~~~~qRyrC~~C~~tf~~   65 (129)
T COG3677          31 VNCPRCKSSN--VVKIGGIRRGHQRYKCKSCGSTFTV   65 (129)
T ss_pred             CcCCCCCccc--eeeECCccccccccccCCcCcceee
Confidence            7899999999  2225555566999999999999874

>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases

Probab=92.19  E-value=0.089  Score=36.50  Aligned_cols=30  Identities=47%  Similarity=0.885  Sum_probs=21.2

Q ss_pred             CCCCCCCCCCcceeeeccccC-CCCcccccccc
Q 021641           48 LNCPRCNSTNTKFCYYNNYSL-TQPRYFCKTCR   79 (309)
Q Consensus        48 ~~CPRC~S~~TKfcyyNNy~~-~QPR~fCk~Cr   79 (309)
                      +.||+|.+++.-  |=|-.+. -..||+|++|+
T Consensus         6 v~CP~C~s~~~v--~k~G~~~~G~qryrC~~C~   36 (36)
T PF03811_consen    6 VHCPRCQSTEGV--KKNGKSPSGHQRYRCKDCR   36 (36)
T ss_pred             eeCCCCCCCCcc--eeCCCCCCCCEeEecCcCC
Confidence            789999998721  1233433 36899999996

Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated

>smart00440 ZnF_C2C2 C2C2 Zinc finger

Probab=89.34  E-value=0.37  Score=33.63  Aligned_cols=37  Identities=30%  Similarity=0.823  Sum_probs=27.6

Q ss_pred             CCCCCCCCCCcceeeeccccCCCC---ccccccccccccc
Q 021641           48 LNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE   84 (309)
Q Consensus        48 ~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT~   84 (309)
                      .+||+|...+.-|-..+-.+...|   -|.|..|...|.+
T Consensus         1 ~~Cp~C~~~~a~~~q~Q~RsaDE~mT~fy~C~~C~~~w~~   40 (40)
T smart00440        1 APCPKCGNREATFFQLQTRSADEPMTVFYVCTKCGHRWRE   40 (40)
T ss_pred             CcCCCCCCCeEEEEEEcccCCCCCCeEEEEeCCCCCEeCC
Confidence            369999977777655555555555   3999999999964

Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.

>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

Probab=87.13  E-value=0.46  Score=32.96  Aligned_cols=36  Identities=28%  Similarity=0.829  Sum_probs=24.4

Q ss_pred             CCCCCCCCCCcceeeeccccCCCCc---ccccccccccc
Q 021641           48 LNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWT   83 (309)
Q Consensus        48 ~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT   83 (309)
                      .+||.|...+.-|--.+..+...|-   |.|.+|..-|+
T Consensus         1 ~~Cp~Cg~~~a~~~~~Q~rsaDE~~T~fy~C~~C~~~wr   39 (39)
T PF01096_consen    1 IKCPKCGHNEAVFFQIQTRSADEPMTLFYVCCNCGHRWR   39 (39)
T ss_dssp             S--SSS-SSEEEEEEESSSSSSSSSEEEEEESSSTEEEE
T ss_pred             CCCcCCCCCeEEEEEeeccCCCCCCeEEEEeCCCCCeeC
Confidence            3699999988766555555555553   89999999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....

>TIGR01384 TFS_arch transcription factor S, archaeal

Probab=81.91  E-value=1.7  Score=34.79  Aligned_cols=42  Identities=24%  Similarity=0.745  Sum_probs=29.5

Q ss_pred             CccCCCCCCCCCCCcceeeeccccCCCCc---ccccccccccccC
Q 021641           44 PQEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTEG   85 (309)
Q Consensus        44 p~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~G   85 (309)
                      |.-...||+|...+.-|-..+-.+...|-   |.|..|+-.|+++
T Consensus        59 ~~~~~~Cp~Cg~~~a~f~~~Q~RsadE~~T~fy~C~~C~~~w~~~  103 (104)
T TIGR01384        59 PTTRVECPKCGHKEAYYWLLQTRRADEPETRFYKCTKCGYVWREY  103 (104)
T ss_pred             CcccCCCCCCCCCeeEEEEeccCCCCCCcEEEEEeCCCCCeeEeC
Confidence            33348999998777666555444444333   9999999999875

There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.

>PHA02998 RNA polymerase subunit; Provisional

Probab=80.57  E-value=1.6  Score=40.53  Aligned_cols=38  Identities=24%  Similarity=0.602  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCCcceeeeccccCCCCc---cccccccccccc
Q 021641           47 QLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTE   84 (309)
Q Consensus        47 ~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~   84 (309)
                      ...||+|...++-|--.|-.+...|-   |.|..|..-|.-
T Consensus       143 ~v~CPkCg~~~A~f~qlQTRSADEPmT~FYkC~~CG~~wkp  183 (195)
T PHA02998        143 NTPCPNCKSKNTTPMMIQTRAADEPPLVRHACRDCKKHFKP  183 (195)
T ss_pred             CCCCCCCCCCceEEEEEeeccCCCCceEEEEcCCCCCccCC
Confidence            38899999999998888888877775   899999999963

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	309
3k1f_M	197	Transcription initiation factor IIB; RNA polymeras	1e-04

>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197

 Score = 41.6 bits (97), Expect = 1e-04
 Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 8/50 (16%)

Query: 33 SRPPMLERKARPQEQLN----CPRCNSTNTKFCYYNNYSLTQPRYFCKTC 78
          +R  + +R  R    LN    CP C     K      +S       C  C
Sbjct: 3  TRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVE--RFSEGD--VVCALC 48

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	309
1qyp_A	57	RNA polymerase II; transcription, RPB9, Zn ribbon,	83.42
1tfi_A	50	Transcriptional elongation factor SII; transcripti	81.75

>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1

Probab=83.42  E-value=1  Score=31.83  Aligned_cols=41  Identities=22%  Similarity=0.711  Sum_probs=26.6

Q ss_pred             CccCCCCCCCCCCCcceeeeccccCCCC---ccccccccccccc
Q 021641           44 PQEQLNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE   84 (309)
Q Consensus        44 p~~~~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT~   84 (309)
                      |.-.++||+|...+..|--.+-.+...|   .|.|..|.--|+.
T Consensus        12 ~~~~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~   55 (57)
T 1qyp_A           12 PTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS   55 (57)
T ss_dssp             CEEECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred             CceEeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence            3334789999984444333333334444   3999999999976

>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=81.75  E-value=1  Score=31.96  Aligned_cols=36  Identities=22%  Similarity=0.697  Sum_probs=27.1

Q ss_pred             CCCCCCCCCCcceeeeccccCCCCc---ccccccccccc
Q 021641           48 LNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWT   83 (309)
Q Consensus        48 ~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT   83 (309)
                      ..||+|...+..|--.+..+...|-   |.|..|..-|.
T Consensus        10 ~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~   48 (50)
T 1tfi_A           10 FTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK   48 (50)
T ss_dssp             SCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred             cCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence            7899999887776555555555453   89999998885

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	309
d1twfi2	72	RBP9 subunit of RNA polymerase II {Baker's yeast (	92.5
d1tfia_	50	Transcriptional factor SII, C-terminal domain {Hum	89.09
d1qypa_	57	RBP9 subunit of RNA polymerase II {Archaeon Thermo	85.54

>d1twfi2 g.41.3.1 (I:50-121) RBP9 subunit of RNA polymerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: RBP9 subunit of RNA polymerase II
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.50  E-value=0.057  Score=39.64  Aligned_cols=45  Identities=20%  Similarity=0.551  Sum_probs=32.5

Q ss_pred             CCccCCCCCCCCCCCcceeeeccccCCCCc---ccccccccccccCCc
Q 021641           43 RPQEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTEGGS   87 (309)
Q Consensus        43 ~p~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~GGt   87 (309)
                      .|.-...||+|...+.-|-+.+-.+..-|-   |.|..|.-.|+...+
T Consensus        19 lp~t~~~CpkCg~~~a~~~q~QtRsaDE~mT~Fy~C~~C~h~Wr~~~~   66 (72)
T d1twfi2          19 LPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK   66 (72)
T ss_dssp             SCCCCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred             CCccCCCCCCCCCCeEEEEEeecCccCCCceEEEEcCCCCCCcccccc
Confidence            344457899999887776665555444443   999999999998554

>d1tfia_ g.41.3.1 (A:) Transcriptional factor SII, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcriptional factor SII, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.09  E-value=0.12  Score=35.50  Aligned_cols=38  Identities=21%  Similarity=0.670  Sum_probs=30.8

Q ss_pred             ccCCCCCCCCCCCcceeeeccccCCCCc---cccccccccc
Q 021641           45 QEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYW   82 (309)
Q Consensus        45 ~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyW   82 (309)
                      ...+.||+|.+.+..|--.|..+...|-   +.|..|..-|
T Consensus         7 T~~~~C~kC~~~~~~~~~~QtRSADEp~T~F~~C~~Cg~~W   47 (50)
T d1tfia_           7 TDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRW   47 (50)
T ss_dssp             CCCSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEE
T ss_pred             cCCEECCCCCCCccEEEEEEccCCCCCceEEEEccccCCee
Confidence            3447999999998887777777777665   8999999988

>d1qypa_ g.41.3.1 (A:) RBP9 subunit of RNA polymerase II {Archaeon Thermococcus celer [TaxId: 2264]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: RBP9 subunit of RNA polymerase II
species: Archaeon Thermococcus celer [TaxId: 2264]

Probab=85.54  E-value=0.25  Score=34.58  Aligned_cols=42  Identities=21%  Similarity=0.700  Sum_probs=30.5

Q ss_pred             CCccCCCCCCCCCCCcceeeeccccCCCCc---cccccccccccc
Q 021641           43 RPQEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTE   84 (309)
Q Consensus        43 ~p~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~   84 (309)
                      .|...+.||+|...+.-|--.|-.+..-|-   |.|..|.--|.+
T Consensus        11 ~pt~~~~CpkC~~~~a~~~~~QtRsaDE~~T~fy~C~~Cg~~wre   55 (57)
T d1qypa_          11 LPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS   55 (57)
T ss_dssp             SCEEECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred             CCcccCCCCCCCCCceEEEEeecccccCCCeEEEEeCCCCCccee
Confidence            454557899999888776655555444443   899999999964