Citrus Sinensis ID: 036178

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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-------310-------320-------330
Protein Sequence
MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHccccccccccccccccccccccccEEEEEcccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHccccHHHHHHHHcccccccccccccccccccccccHHHcccccccccccccccccEEEccccccccccccccccccccccccccccccHHHHHHHHcccccccccHHcccccccccccccccEEEHHccccccccccccccccccccccccccccccccccccEEEccccccccccccccccc
Coil and Loop (DISEMBL)
mqdihsigggrlfgggggdrrlrphphqnhqalkcprcdslntkfcyynnynlsqprhfckncrrywtkggvlrnvpvgggcrktkrsskpkpnsessaqtqtqtqteapaagerdrkanshsssesssTLTVTnnnnnnnntSVETVSVHSSSSVSNVLSAMNnnnnnnnndpgfetapttalldqassdcgifseigsftslitssnealpfgfsNLLNNAQQNLEHVQNEQQWQQEQQKLASassmgghhelKLHEMASGLLDQTVHDELSAlqdrsgntggfgsldwhgsadhqglfdlpnavdhasywsqstqwtdqdhpslylp
Flexible Loop (DISEMBL)
mqdihsigggrlfggggGDRRLRPHPHqnhqalkcprcdSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKggvlrnvpvgggcrktkrsskpkpnsessaqtqtqtqteapaagerdrkanshsssessstltvtnnnnnnnNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQGLFDLPNAVDHASYWsqstqwtdqdhpslylp
Low Complexity Region (SEG)
MQDIHSIgggrlfgggggdrrlrPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAqtqtqtqtEAPAAGERDRKanshsssessstltvtnnnnnnnntsvetvsvhssssvsnvlsamnnnnnnnnnDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVqneqqwqqeqqKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP
Disordered region (IsUnstruct)
********************************LKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGC***********************************************************************************************************SDCGIFSEIGSFTSLITSSNEALPFGFSNLL****************************************************************GFGSLDWHGSADHQGLFDLPNAVDHASYWSQ***************
Disordered Region (DISOPRED)
************************************RCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGV***************************************************************************************************************************************************************************************************************************HGSADHQGLFDLPNAVDHASYWSQSTQWTDQD*******
Disordered Region (DISEMBL)
MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGG***************************************************VTNNNNNNNNTSV************NVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLE**********************GHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP
Disordered Region (DISPRO)
******************************QALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGC*************************************************************SVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLA******************GLLDQTVHDELSALQDR****GGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLxxxxxxxxxxxxxxxxxxxxxQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP
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	330	2.2.26 [Sep-21-2011]
Q8LDR0	307	Dof zinc finger protein D	yes	no	0.812	0.872	0.437	2e-49
Q9LSL6	316	Dof zinc finger protein D	no	no	0.193	0.202	0.812	7e-29
O24463	328	Dof zinc finger protein P	N/A	no	0.221	0.222	0.710	7e-29
Q84TE9	257	Dof zinc finger protein D	no	no	0.196	0.252	0.761	1e-27
O82155	194	Dof zinc finger protein D	no	no	0.233	0.396	0.679	2e-27
Q9M1E6	245	Dof zinc finger protein D	no	no	0.196	0.265	0.746	1e-26
Q8L9V6	331	Dof zinc finger protein D	no	no	0.175	0.175	0.810	3e-26
Q9ZV33	340	Dof zinc finger protein D	no	no	0.160	0.155	0.867	4e-26
Q9FM03	372	Dof zinc finger protein D	no	no	0.190	0.169	0.772	8e-26
O80928	330	Dof zinc finger protein D	no	no	0.172	0.172	0.789	1e-25

>sp|Q8LDR0|DOF54_ARATH Dof zinc finger protein DOF5.4 OS=Arabidopsis thaliana GN=DOF5.4 PE=2 SV=2

 Score =  196 bits (499), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 139/318 (43%), Positives = 170/318 (53%), Gaps = 50/318 (15%)

Query: 19  DRRLRPHPHQ---NHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 75
           DRR+R H +    +HQ+LKCPRC+SLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN
Sbjct: 34  DRRMRAHQNNILNHHQSLKCPRCNSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 93

Query: 76  VPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTN 135
           VPVGGGCRK KRS   +  S SSA   T TQ         D      SS+ S S+   ++
Sbjct: 94  VPVGGGCRKAKRSKTKQVPSSSSADKPTTTQD--------DHHVEEKSSTGSHSSSESSS 145

Query: 136 NNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIF 195
              +N+ T        ++   S+V+   +  N     + G E +    LL Q SS  G+F
Sbjct: 146 LTASNSTTVAAVSVTAAAEVASSVIPGFDMPNMKIYGN-GIEWS---TLLGQGSSAGGVF 201

Query: 196 SEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLASASSMGGHHEL 255
           SEIG F ++  S+ E  PFGF     N     +H++ E +  Q+QQ              
Sbjct: 202 SEIGGFPAV--SAIETTPFGFGGKFVNQD---DHLKLEGETVQQQQ-------------- 242

Query: 256 KLHEMASGLLDQTVHDELSALQDRSGNTG-GFGSLDWHGSADHQGLFDLPNAVDHASYWS 314
                     D+T   E    Q RS +   GF  LDW      Q LFDL + VDHA YWS
Sbjct: 243 --------FGDRTAQVEF---QGRSSDPNMGFEPLDWGSGGGDQTLFDLTSTVDHA-YWS 290

Query: 315 QSTQWT--DQDHPSLYLP 330
           QS QWT  DQD   LYLP
Sbjct: 291 QS-QWTSSDQDQSGLYLP 307

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

 Score =  128 bits (321), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 52/64 (81%), Positives = 59/64 (92%)

Query: 28 QNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKR 87
          Q+ Q LKCPRC+S NTKFCYYNNY+LSQPRHFCK+CRRYWT+GG LRNVP+GGGCRKTK+
Sbjct: 36 QDQQNLKCPRCNSPNTKFCYYNNYSLSQPRHFCKSCRRYWTRGGALRNVPIGGGCRKTKK 95

Query: 88 SSKP 91
          S KP
Sbjct: 96 SIKP 99

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 =  128 bits (321), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 54/76 (71%), Positives = 63/76 (82%), Gaps = 3/76 (3%)

Query: 15  GGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLR 74
           GG G+R+ RP   Q  +ALKCPRCDS NTKFCYYNNY++SQPR+FCK CRRYWT GG LR
Sbjct: 45  GGSGERKPRP---QLPEALKCPRCDSNNTKFCYYNNYSMSQPRYFCKACRRYWTHGGTLR 101

Query: 75  NVPVGGGCRKTKRSSK 90
           NVP+GGGCRK K +S+
Sbjct: 102 NVPIGGGCRKNKHASR 117

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

 Score =  124 bits (310), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 51/67 (76%), Positives = 59/67 (88%), Gaps = 2/67 (2%)

Query: 23  RPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGC 82
           RP P +   AL+CPRCDS NTKFCYYNNY+L+QPR+FCK+CRRYWTKGG LRN+PVGGGC
Sbjct: 47  RPQPPE--LALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGC 104

Query: 83  RKTKRSS 89
           RK KRS+
Sbjct: 105 RKNKRST 111

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

Arabidopsis thaliana (taxid: 3702)

>sp|O82155|DOF17_ARATH Dof zinc finger protein DOF1.7 OS=Arabidopsis thaliana GN=DOF1.7 PE=2 SV=1

 Score =  123 bits (309), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 55/81 (67%), Positives = 61/81 (75%), Gaps = 4/81 (4%)

Query: 30  HQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSS 89
            + LKCPRCDS NTKFCYYNNYNLSQPRHFCKNCRRYWTKGG LRN+PVGGG RK+ + S
Sbjct: 30  QEQLKCPRCDSPNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGALRNIPVGGGTRKSNKRS 89

Query: 90  KPKPNSESSAQTQTQTQTEAP 110
              P    S+  + QT  E P
Sbjct: 90  GSSP----SSNLKNQTVAEKP 106

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

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 (302), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 50/67 (74%), Positives = 59/67 (88%), Gaps = 2/67 (2%)

Query: 23 RPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGC 82
          RP P +  Q+L+CPRCDS NTKFCYYNNY+LSQPR+FCK+CRRYWTKGG+LRN+P+GG  
Sbjct: 32 RPAPPE--QSLRCPRCDSTNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGILRNIPIGGAY 89

Query: 83 RKTKRSS 89
          RK KRSS
Sbjct: 90 RKHKRSS 96

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9V6|DOF11_ARATH Dof zinc finger protein DOF1.1 OS=Arabidopsis thaliana GN=DOF1.1 PE=1 SV=2

 Score =  119 bits (298), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 47/58 (81%), Positives = 51/58 (87%)

Query: 33  LKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSK 90
           LKCPRCDS NTKFCYYNNYNL+QPRHFCK CRRYWT+GG LRNVPVGGGCR+  +  K
Sbjct: 77  LKCPRCDSSNTKFCYYNNYNLTQPRHFCKGCRRYWTQGGALRNVPVGGGCRRNNKKGK 134

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|Q9ZV33|DOF22_ARATH Dof zinc finger protein DOF2.2 OS=Arabidopsis thaliana GN=DOF2.2 PE=2 SV=2

 Score =  119 bits (297), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 46/53 (86%), Positives = 50/53 (94%)

Query: 32  ALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRK 84
           ALKCPRCDS NTKFCY+NNYNL+QPRHFCK CRRYWT+GG LRNVPVGGGCR+
Sbjct: 93  ALKCPRCDSANTKFCYFNNYNLTQPRHFCKACRRYWTRGGALRNVPVGGGCRR 145

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FM03|DOF56_ARATH Dof zinc finger protein DOF5.6 OS=Arabidopsis thaliana GN=DOF5.6 PE=2 SV=2

 Score =  118 bits (295), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 51/66 (77%), Positives = 57/66 (86%), Gaps = 3/66 (4%)

Query: 18  GDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVP 77
           G RRLRP PH + Q  KCPRC+S +TKFCYYNNY+LSQPR+FCK CRRYWTKGG LRN+P
Sbjct: 61  GGRRLRP-PHDHPQ--KCPRCESTHTKFCYYNNYSLSQPRYFCKTCRRYWTKGGTLRNIP 117

Query: 78  VGGGCR 83
           VGGGCR
Sbjct: 118 VGGGCR 123

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

Arabidopsis thaliana (taxid: 3702)

>sp|O80928|DOF24_ARATH Dof zinc finger protein DOF2.4 OS=Arabidopsis thaliana GN=DOF2.4 PE=2 SV=1

 Score =  117 bits (294), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 45/57 (78%), Positives = 53/57 (92%)

Query: 32  ALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRS 88
           ALKCPRC+S NTKFCY+NNY+L+QPRHFCK CRRYWT+GG LRNVPVGGGCR+ +R+
Sbjct: 88  ALKCPRCESTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNRRT 144

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	330
302398771	520	DOF domain class transcription factor [M	0.939	0.596	0.534	8e-70
255547089	313	conserved hypothetical protein [Ricinus	0.896	0.945	0.538	2e-69
224118954	329	f-box family protein [Populus trichocarp	0.939	0.942	0.547	1e-65
224135335	321	f-box family protein [Populus trichocarp	0.930	0.956	0.555	4e-65
225455716	291	PREDICTED: dof zinc finger protein DOF5.	0.875	0.993	0.524	2e-62
356511564	292	PREDICTED: dof zinc finger protein DOF5.	0.863	0.976	0.493	2e-62
351723985	300	Dof4 [Glycine max] gi|112363362|gb|ABI16	0.866	0.953	0.479	1e-60
351724563	341	Dof22 [Glycine max] gi|112363400|gb|ABI1	0.972	0.941	0.454	5e-52
21553988	299	zinc finger protein OBP4-like [Arabidops	0.812	0.896	0.437	9e-48
15239449	307	Dof zinc finger protein DOF5.4 [Arabidop	0.812	0.872	0.437	1e-47

>gi|302398771|gb|ADL36680.1| DOF domain class transcription factor [Malus x domestica]

 Score =  270 bits (689), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 184/344 (53%), Positives = 216/344 (62%), Gaps = 34/344 (9%)

Query: 1   MQDIHSIGGGRLFGGGGG--DRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH 58
           MQDIHS+ GG  F GG G  D RLRPH H N  ALKCPRCDSLNTKFCYYNNYNLSQPRH
Sbjct: 197 MQDIHSVRGGGRFFGGSGGGDPRLRPHQHPNQHALKCPRCDSLNTKFCYYNNYNLSQPRH 256

Query: 59  FCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRK 118
           FCK CRRYWTKGGVLRNVPVGGGCRKTKRS     +S S   +      +  +A +    
Sbjct: 257 FCKACRRYWTKGGVLRNVPVGGGCRKTKRSKTKNSSSSSPISSPPPPPPQPSSADQ---- 312

Query: 119 ANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSS-SVSNVLSAMNNNNNN-----NNN 172
            N  SS  SS + ++TN        + E VS  SS+ S SN+LS ++N  +N        
Sbjct: 313 -NKSSSRSSSESSSLTNTTAAAATAATEAVSEPSSTGSASNLLSNIHNPESNFFISQGGA 371

Query: 173 DPGFET-APTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLN---NAQQNLE 228
           + GFE  A   ALL+ ++   GIFSEIGSFTSLITSSN+ +PF F N+     N Q N +
Sbjct: 372 NGGFEPGASAAALLEHSTEINGIFSEIGSFTSLITSSND-MPFSFGNINGSPFNQQGNHD 430

Query: 229 HVQNEQ-QWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRS-GNTGGF 286
           H Q  Q QW Q+ Q             +K+ E++ GLLDQT   +LS  Q+RS    GGF
Sbjct: 431 HNQVHQTQWGQQNQG------------VKMQEISGGLLDQTAQVDLSVFQNRSHVGGGGF 478

Query: 287 GSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP 330
           GSLDW   +  QGLFDLPN VD A YWS S QWTDQDHP+LYLP
Sbjct: 479 GSLDWQPGSGDQGLFDLPNTVDQA-YWSHS-QWTDQDHPTLYLP 520

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547089|ref|XP_002514602.1| conserved hypothetical protein [Ricinus communis] gi|223546206|gb|EEF47708.1| conserved hypothetical protein [Ricinus communis]

 Score =  268 bits (686), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 187/347 (53%), Positives = 218/347 (62%), Gaps = 51/347 (14%)

Query: 1   MQDIHSIGGGRLFGGGGG--DRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH 58
           MQDIHSIGGG     GGG  DRRLR H HQN QALKCPRCDSLNTKFCYYNNYNLSQPRH
Sbjct: 1   MQDIHSIGGGGRLFSGGGGGDRRLRAHHHQNQQALKCPRCDSLNTKFCYYNNYNLSQPRH 60

Query: 59  FCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQ-----TQTQTEAPAAG 113
           FCKNCRRYWTKGGVLRNVPVGGGCRKTKR SKPK  + ++  +        T T    A 
Sbjct: 61  FCKNCRRYWTKGGVLRNVPVGGGCRKTKR-SKPKHTTTTTTNSTITAPTISTNTSTILAQ 119

Query: 114 ERDRKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNND 173
           E +RK+++  SS  SS+LT T     N  T +E  S  +S++ +N+L       NN   +
Sbjct: 120 EEERKSSNSHSSSESSSLTAT-----NTATGLEAASSSASAT-TNIL-------NNGIGE 166

Query: 174 PGFETAPTT-------ALLDQASSDCGIFSEIG-SFTSLITSSNEALPFGFSNLLNNAQQ 225
                 P T        LL+Q  SDCGIFSEI    + + +SSN+ L FGF NL+   Q 
Sbjct: 167 SKLYVHPNTNTTSFEHGLLEQ-ESDCGIFSEIASLTSLITSSSNDHLQFGFGNLM--TQH 223

Query: 226 NLEHVQNEQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQ--DRSGNT 283
           +LE   N QQW Q+Q+ +              ++MA GL+DQTVH ELSALQ  DRSG  
Sbjct: 224 SLE---NNQQWHQQQKMVGICGQ---------NDMAGGLVDQTVHIELSALQINDRSGKG 271

Query: 284 GGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP 330
              G LDW  S   Q LFDLPNAVD  +YWSQS QWTDQD P+LYLP
Sbjct: 272 ---GPLDWQASGGDQSLFDLPNAVDQ-TYWSQS-QWTDQDQPTLYLP 313

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118954|ref|XP_002317948.1| f-box family protein [Populus trichocarpa] gi|222858621|gb|EEE96168.1| f-box family protein [Populus trichocarpa]

 Score =  256 bits (654), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 191/349 (54%), Positives = 222/349 (63%), Gaps = 39/349 (11%)

Query: 1   MQDIHSIGGGRLFGGGGG--DRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH 58
           MQD HSIGGG     GGG  DR+LRPH HQN QALKCPRCDSLNTKFCYYNNYNLSQPRH
Sbjct: 1   MQDTHSIGGGGRLFSGGGGGDRKLRPHHHQNQQALKCPRCDSLNTKFCYYNNYNLSQPRH 60

Query: 59  FCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSE-SSAQTQTQTQTEAPAAGE--- 114
           FCK+CRRYWTKGGVLRNVPVGGGCRKTKR S+PK N+  ++  T T + T      E   
Sbjct: 61  FCKSCRRYWTKGGVLRNVPVGGGCRKTKR-SRPKQNTPITTCDTITASSTTPQELQEQHQ 119

Query: 115 -RDRKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNN--NNNN 171
            RD K++   SS  SS+LT TNN N N      +    SS   +N+L+ +  +    + N
Sbjct: 120 QRDHKSSDSHSSSESSSLTATNNTNANTTAEAVSALSVSSVVSNNLLNGIVESKIFPHGN 179

Query: 172 NDPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQN----- 226
            +P FE     +LL+Q  SDCGIFSEIGSFTSLITS+N+   FGFSN+++  Q       
Sbjct: 180 VNPSFE----PSLLEQG-SDCGIFSEIGSFTSLITSTNDL--FGFSNMMSQHQPPHQQQG 232

Query: 227 LEHVQNEQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSAL---QDRSGNT 283
           LEH     Q QQ+ Q        GG           GL+DQTVH ELSAL   +    + 
Sbjct: 233 LEHHVQHNQNQQQWQNHQQQEMTGG----------GGLIDQTVHVELSALPSSRSTKNDD 282

Query: 284 GGFGSLDWH-GSADHQ-GLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP 330
           G FG+LDW  GS D    LFDLPNAVD A YWSQS QW DQDHPSLY+P
Sbjct: 283 GEFGALDWQLGSGDQATSLFDLPNAVDQA-YWSQS-QWNDQDHPSLYIP 329

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135335|ref|XP_002322044.1| f-box family protein [Populus trichocarpa] gi|118488417|gb|ABK96024.1| unknown [Populus trichocarpa] gi|222869040|gb|EEF06171.1| f-box family protein [Populus trichocarpa]

 Score =  254 bits (649), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 191/344 (55%), Positives = 219/344 (63%), Gaps = 37/344 (10%)

Query: 1   MQDIHSIGGGRLFGGGGG--DRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH 58
           MQD HSIGGG     GGG  DRRLRPH HQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH
Sbjct: 1   MQDTHSIGGGGRLFSGGGGGDRRLRPHHHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRH 60

Query: 59  FCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPK--PNSESSAQTQTQTQTEAPAAGERD 116
           FCK+CRRYWTKGGVLRNVPVGGGCRKTKRS   +  P++ S A T + T+ +      + 
Sbjct: 61  FCKSCRRYWTKGGVLRNVPVGGGCRKTKRSKLKQNTPSTTSDAITTSSTRPQELQEQHQR 120

Query: 117 RKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVS-NVLSAMNNNNNNNNND-- 173
           R   S +S  SS + ++T  NN N NT+VE VS  S +SVS N+L+ +  +      D  
Sbjct: 121 RDHMSSNSHSSSESSSLTATNNTNANTAVEAVSALSVNSVSNNLLNGIVESKIFPRGDMN 180

Query: 174 PGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFS-NLLNNAQQNLEHVQN 232
           P FE     ALL+Q  SDCGIFSEIGSFTSLITS+N+ L FGFS       QQ LEH  +
Sbjct: 181 PSFE----PALLEQG-SDCGIFSEIGSFTSLITSTND-LSFGFSNTTNQQQQQGLEH--H 232

Query: 233 EQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNT----GGFGS 288
            Q  Q +QQ       M G           GL+DQT+H ELSAL   S +T    GGFG+
Sbjct: 233 VQNNQNQQQWQNQHQEMTG----------GGLIDQTIHAELSALPSSSRSTENTGGGFGA 282

Query: 289 LDWH-GSADHQ-GLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP 330
           LDW  GS D   G F LPN VD A YWSQS QW D    + YLP
Sbjct: 283 LDWQLGSGDQAGGFFYLPNTVDQA-YWSQS-QWNDM---TAYLP 321

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455716|ref|XP_002267092.1| PREDICTED: dof zinc finger protein DOF5.4-like [Vitis vinifera]

 Score =  245 bits (626), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 174/332 (52%), Positives = 207/332 (62%), Gaps = 43/332 (12%)

Query: 1   MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFC 60
           MQDIHS+G G      GGDRRLRPH    +QALKCPRC+SLNTKFCYYNNYNLSQPRHFC
Sbjct: 1   MQDIHSMGAGGG-RIFGGDRRLRPH---QNQALKCPRCESLNTKFCYYNNYNLSQPRHFC 56

Query: 61  KNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKAN 120
           K+CRRYWTKGGVLRNVPVGGGCRKTKRS             + ++ ++AP    R+RK+N
Sbjct: 57  KSCRRYWTKGGVLRNVPVGGGCRKTKRS-------------KAKSSSDAP----RERKSN 99

Query: 121 SHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNN--NNNNNDPGFET 178
           SHSSSESSS    T        T+        SS+ ++ L     +      + +P FE 
Sbjct: 100 SHSSSESSSL---TATTTAAATTATTEAVSAPSSNAASTLVGFRESRFFAPQSPNPNFEM 156

Query: 179 APTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQ 238
            PT  LLD  SSD  IF EIGSFTSL+T SN+    GF+        ++   + ++Q  Q
Sbjct: 157 -PT--LLDH-SSDGNIFPEIGSFTSLMTGSNDPAALGFN------ISDISPFKYQEQVDQ 206

Query: 239 EQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSADHQ 298
            QQ       M    ELK+ E+ +G LDQTV  ELSALQ+RS N GGF SLDW  S D Q
Sbjct: 207 NQQWQQQQQKMS--DELKMQEITAGFLDQTVQVELSALQNRS-NHGGFPSLDWQTSGD-Q 262

Query: 299 GLFDLPNAVDHASYWSQSTQWTDQDHPSLYLP 330
           G+FDLP  VD   YW+QS QW+D DHP LYLP
Sbjct: 263 GIFDLPGNVDQG-YWTQS-QWSDNDHP-LYLP 291

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511564|ref|XP_003524495.1| PREDICTED: dof zinc finger protein DOF5.4-like [Glycine max]

 Score =  245 bits (625), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 164/332 (49%), Positives = 200/332 (60%), Gaps = 47/332 (14%)

Query: 1   MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFC 60
           MQ+IH++GGGR F G   DRRLRPH HQ+ QALKCPRCDSLNTKFCYYNNYNLSQPRHFC
Sbjct: 1   MQEIHTMGGGRFFSG---DRRLRPH-HQSQQALKCPRCDSLNTKFCYYNNYNLSQPRHFC 56

Query: 61  KNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKAN 120
           KNCRRYWTKGGVLRNVPVGGGCRK+KRSSKP         T+T +QT +P   + D   N
Sbjct: 57  KNCRRYWTKGGVLRNVPVGGGCRKSKRSSKP---------TKTSSQTASP---DPDHHNN 104

Query: 121 SHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAP 180
           + +S  SS + ++T        T+         +   +  +  NN   +    P  ET P
Sbjct: 105 NTNSHSSSGSSSLTAAAATATTTTTTEAVSAPETLNLDSNNNNNNMQESKLLIPALETNP 164

Query: 181 TTALLDQASSDC-GIFSEIGSF---TSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQW 236
               L+  + DC GIFSEIG F    +  TS+NE L FGF N           + +   +
Sbjct: 165 ----LEHGTGDCGGIFSEIGPFTSLITTTTSTNEPLAFGFGN---------STLPDASSF 211

Query: 237 QQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGSLDWHGSAD 296
           Q   QK++S+S+     ELKL E  S LLD TV         +  + GGFGSLDW G AD
Sbjct: 212 QWLHQKVSSSSN----EELKLPE--SSLLDHTV-----DFHSKISHGGGFGSLDWQGGAD 260

Query: 297 HQGLFDLPNAVDHASYWSQSTQWTDQDHPSLY 328
            QGLFDLPN VDHA YWS  T W+D D+ +L+
Sbjct: 261 -QGLFDLPNTVDHA-YWSH-THWSDHDNSTLF 289

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723985|ref|NP_001236530.1| Dof4 [Glycine max] gi|112363362|gb|ABI16005.1| Dof4 [Glycine max]

 Score =  239 bits (610), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 165/344 (47%), Positives = 204/344 (59%), Gaps = 58/344 (16%)

Query: 1   MQDIHSIGGGRLFGGGG-GDRRLRPHPHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHF 59
           MQ IHS+ GGR F G G  DRRLRPH HQN QALKCPRCDSLNTKFCYYNNYNLSQPRHF
Sbjct: 1   MQQIHSMPGGRFFSGSGSADRRLRPH-HQNQQALKCPRCDSLNTKFCYYNNYNLSQPRHF 59

Query: 60  CKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKA 119
           CKNCRRYWTKGGVLRNVPVGGGCRK+KRSSKP      +  T ++T +  P         
Sbjct: 60  CKNCRRYWTKGGVLRNVPVGGGCRKSKRSSKP------NKITPSETASPPPPPHPDHNNN 113

Query: 120 NSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSN-----VLSAMNNNNNNNNNDP 174
           ++  SS  SS+LT          ++ ET++  S+++ +      ++ A+  NN       
Sbjct: 114 SNSHSSSESSSLTAAVATTTEAVSAPETLNSDSNNNNNMQESKLLIPALETNNP------ 167

Query: 175 GFETAPTTALLDQASSDC-GIFSEIGSF---TSLITSSNEAL--PFGFSNLLNNAQQNLE 228
                     L+Q + DC GIFSEIG F    +  TS+NE L   FGF N          
Sbjct: 168 ----------LEQGTGDCGGIFSEIGPFTSLITTTTSTNEPLGSGFGFGN---------S 208

Query: 229 HVQNEQQWQQEQQKLASASSMGGHHELKLHEMASGLLDQTVHDELSALQDRSGNTGGFGS 288
            + +   +Q   QK++S +      ELKL E  +  LD TV  +LS +  ++ + GGFGS
Sbjct: 209 TLPDASSFQWHYQKVSSNNE-----ELKLPE--NSFLDHTV--DLSGMHSKTSHGGGFGS 259

Query: 289 LDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPS--LYLP 330
           LDW G AD QGLFDLPN VDHA YWS  T W+D D+ S   +LP
Sbjct: 260 LDWQGGAD-QGLFDLPNTVDHA-YWSH-THWSDHDNSSSLFHLP 300

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724563|ref|NP_001236806.1| Dof22 [Glycine max] gi|112363400|gb|ABI16024.1| Dof22 [Glycine max]

 Score =  211 bits (536), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 159/350 (45%), Positives = 206/350 (58%), Gaps = 29/350 (8%)

Query: 1   MQDIHSIGGGRLFGGGGGDRRLRPHPHQNHQ---ALKCPRCDSLNTKFCYYNNYNLSQPR 57
           MQ+IHSIGGGR   GGGGDRRLRPH HQNH     +KCPRCDSLNTKFCYYNNYNLSQPR
Sbjct: 1   MQEIHSIGGGRF-FGGGGDRRLRPH-HQNHHQQPPIKCPRCDSLNTKFCYYNNYNLSQPR 58

Query: 58  HFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPK-PNSESSAQTQTQTQTEAPAAGERD 116
           HFCKNCRRYWTKGGVLRNVPVGGGCRK+KRS+KPK   S ++  +         ++ E  
Sbjct: 59  HFCKNCRRYWTKGGVLRNVPVGGGCRKSKRSNKPKTTTSAAATTSSNNNNNNPSSSSETA 118

Query: 117 RKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVS----NVLSAMNNNNNNNNN 172
                    +    L + +N+++++++   T +V ++ ++S    N +S  N   +NN  
Sbjct: 119 AATAPTPPQQPPPPLELEHNSHSHSSSESSTYTVAATEAMSAPTTNAVSNNNLLLDNNRE 178

Query: 173 DPGFETAPTTALLDQASSDCGIFSEIGSFTSLITSSNEALPFGFSNLLNNAQQNL----- 227
              F  A     L+Q+ S  G+FS+I SF+SL+  +N+AL FGF N  NN+  ++     
Sbjct: 179 SKVF--ANPNPYLEQSRSG-GLFSDIESFSSLVNLNNQALGFGFGN--NNSNISILDATS 233

Query: 228 ----EHVQNEQQWQQEQQKLASASSMGGHHELKLHEMASG-LLDQTVHDELSALQDRSGN 282
                 V N     Q               +   HE  +   LD TV  E S+LQ ++G+
Sbjct: 234 FRFGVSVTNPHGNDQVLAAPGGGHGQWQQQQQNHHEFGTASFLDHTVPLEFSSLQHKAGH 293

Query: 283 TGGFGSLDWHGSADHQGLFDLPNAVDHASYWSQSTQWTDQDHPS--LYLP 330
            GGFG LDW    D QGLFDLPN VD   YW+  T W+DQD+PS   +LP
Sbjct: 294 QGGFGPLDWQPGGD-QGLFDLPNTVDQP-YWTHHTHWSDQDNPSSLFHLP 341

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21553988|gb|AAM63069.1| zinc finger protein OBP4-like [Arabidopsis thaliana]

 Score =  196 bits (499), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 139/318 (43%), Positives = 170/318 (53%), Gaps = 50/318 (15%)

Query: 19  DRRLRPHPHQ---NHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 75
           DRR+R H +    +HQ+LKCPRC+SLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN
Sbjct: 26  DRRMRAHQNNILNHHQSLKCPRCNSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 85

Query: 76  VPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTN 135
           VPVGGGCRK KRS   +  S SSA   T TQ         D      SS+ S S+   ++
Sbjct: 86  VPVGGGCRKAKRSKTKQVPSSSSADKPTTTQD--------DHHVEEKSSTGSHSSSESSS 137

Query: 136 NNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIF 195
              +N+ T        ++   S+V+   +  N     + G E +    LL Q SS  G+F
Sbjct: 138 LTASNSTTVAAVSVTAAAEVASSVIPGFDMPNMKIYGN-GIEWS---TLLGQGSSAGGVF 193

Query: 196 SEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLASASSMGGHHEL 255
           SEIG F ++  S+ E  PFGF     N     +H++ E +  Q+QQ              
Sbjct: 194 SEIGGFPAV--SAIETTPFGFGGKFVNQD---DHLKLEGETVQQQQ-------------- 234

Query: 256 KLHEMASGLLDQTVHDELSALQDRSGNTG-GFGSLDWHGSADHQGLFDLPNAVDHASYWS 314
                     D+T   E    Q RS +   GF  LDW      Q LFDL + VDHA YWS
Sbjct: 235 --------FGDRTAQVEF---QGRSSDPNMGFEPLDWGSGGGDQTLFDLTSTVDHA-YWS 282

Query: 315 QSTQWT--DQDHPSLYLP 330
           QS QWT  DQD   LYLP
Sbjct: 283 QS-QWTSSDQDQSGLYLP 299

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239449|ref|NP_200893.1| Dof zinc finger protein DOF5.4 [Arabidopsis thaliana] gi|55584037|sp|Q8LDR0.2|DOF54_ARATH RecName: Full=Dof zinc finger protein DOF5.4; Short=AtDOF5.4; AltName: Full=OBF-binding protein 4 gi|10176912|dbj|BAB10105.1| zinc finger protein [Arabidopsis thaliana] gi|15912271|gb|AAL08269.1| AT5g60850/mae1_100 [Arabidopsis thaliana] gi|19547997|gb|AAL87362.1| AT5g60850/mae1_100 [Arabidopsis thaliana] gi|332010003|gb|AED97386.1| Dof zinc finger protein DOF5.4 [Arabidopsis thaliana]

 Score =  196 bits (499), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 139/318 (43%), Positives = 170/318 (53%), Gaps = 50/318 (15%)

Query: 19  DRRLRPHPHQ---NHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 75
           DRR+R H +    +HQ+LKCPRC+SLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN
Sbjct: 34  DRRMRAHQNNILNHHQSLKCPRCNSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN 93

Query: 76  VPVGGGCRKTKRSSKPKPNSESSAQTQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTN 135
           VPVGGGCRK KRS   +  S SSA   T TQ         D      SS+ S S+   ++
Sbjct: 94  VPVGGGCRKAKRSKTKQVPSSSSADKPTTTQD--------DHHVEEKSSTGSHSSSESSS 145

Query: 136 NNNNNNNTSVETVSVHSSSSVSNVLSAMNNNNNNNNNDPGFETAPTTALLDQASSDCGIF 195
              +N+ T        ++   S+V+   +  N     + G E +    LL Q SS  G+F
Sbjct: 146 LTASNSTTVAAVSVTAAAEVASSVIPGFDMPNMKIYGN-GIEWS---TLLGQGSSAGGVF 201

Query: 196 SEIGSFTSLITSSNEALPFGFSNLLNNAQQNLEHVQNEQQWQQEQQKLASASSMGGHHEL 255
           SEIG F ++  S+ E  PFGF     N     +H++ E +  Q+QQ              
Sbjct: 202 SEIGGFPAV--SAIETTPFGFGGKFVNQD---DHLKLEGETVQQQQ-------------- 242

Query: 256 KLHEMASGLLDQTVHDELSALQDRSGNTG-GFGSLDWHGSADHQGLFDLPNAVDHASYWS 314
                     D+T   E    Q RS +   GF  LDW      Q LFDL + VDHA YWS
Sbjct: 243 --------FGDRTAQVEF---QGRSSDPNMGFEPLDWGSGGGDQTLFDLTSTVDHA-YWS 290

Query: 315 QSTQWT--DQDHPSLYLP 330
           QS QWT  DQD   LYLP
Sbjct: 291 QS-QWTSSDQDQSGLYLP 307

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	330
TAIR|locus:2159275	307	OBP4 "OBF binding protein 4" [	0.218	0.234	0.807	1.8e-44
TAIR|locus:2170753	372	HCA2 "HIGH CAMBIAL ACTIVITY2"	0.218	0.193	0.675	5.3e-30
TAIR|locus:2032153	325	AT1G28310 [Arabidopsis thalian	0.257	0.261	0.6	1.1e-29
TAIR|locus:2144030	257	TMO6 "TARGET OF MONOPTEROS 6"	0.212	0.272	0.714	3.7e-29
TAIR|locus:2155755	316	AT5G65590 [Arabidopsis thalian	0.215	0.224	0.727	1.5e-28
TAIR|locus:2056588	288	AT2G28510 [Arabidopsis thalian	0.178	0.204	0.813	2.5e-28
TAIR|locus:2026595	339	OBP2 [Arabidopsis thaliana (ta	0.248	0.241	0.619	2.2e-27
TAIR|locus:2017567	194	DOF1 "DOF zinc finger protein	0.206	0.350	0.757	2.2e-27
TAIR|locus:2053175	340	AT2G28810 [Arabidopsis thalian	0.206	0.2	0.735	5.7e-27
TAIR|locus:2094746	204	DOF2 "DOF zinc finger protein	0.242	0.392	0.658	9.4e-27

TAIR|locus:2159275 OBP4 "OBF binding protein 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 1.8e-44, Sum P(2) = 1.8e-44
 Identities = 63/78 (80%), Positives = 68/78 (87%)

Query:    27 HQN-----HQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGG 81
             HQN     HQ+LKCPRC+SLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGG
Sbjct:    40 HQNNILNHHQSLKCPRCNSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGG 99

Query:    82 CRKTKRS-SKPKPNSESS 98
             CRK KRS +K  P+S S+
Sbjct:   100 CRKAKRSKTKQVPSSSSA 117

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:2170753 HCA2 "HIGH CAMBIAL ACTIVITY2" [Arabidopsis thaliana (taxid:3702)]

 Score = 299 (110.3 bits), Expect = 5.3e-30, Sum P(2) = 5.3e-30
 Identities = 50/74 (67%), Positives = 60/74 (81%)

Query:    26 PHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKT 85
             PH + Q  KCPRC+S +TKFCYYNNY+LSQPR+FCK CRRYWTKGG LRN+PVGGGCRK 
Sbjct:    68 PHDHPQ--KCPRCESTHTKFCYYNNYSLSQPRYFCKTCRRYWTKGGTLRNIPVGGGCRKN 125

Query:    86 KRSSKPKPNSESSA 99
             K+ S    +S +S+
Sbjct:   126 KKPSSSNSSSSTSS 139

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;TAS

GO:0010067 "procambium histogenesis" evidence=IMP

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IDA

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

 Score = 300 (110.7 bits), Expect = 1.1e-29, Sum P(2) = 1.1e-29
 Identities = 51/85 (60%), Positives = 59/85 (69%)

Query:    26 PHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKT 85
             P Q    LKCPRCDS NTKFCYYNNY+LSQPRHFCK C+RYWT+GG LRNVPVGG  RK 
Sbjct:    34 PQQPQPQLKCPRCDSSNTKFCYYNNYSLSQPRHFCKACKRYWTRGGTLRNVPVGGSYRKN 93

Query:    86 KRSSKPKPNSESSAXXXXXXXXEAP 110
             KR  +P   + ++A         +P
Sbjct:    94 KRVKRPSTATTTTASTVSTTNSSSP 118

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

 Score = 302 (111.4 bits), Expect = 3.7e-29, Sum P(2) = 3.7e-29
 Identities = 50/70 (71%), Positives = 57/70 (81%)

Query:    26 PHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKT 85
             P     AL+CPRCDS NTKFCYYNNY+L+QPR+FCK+CRRYWTKGG LRN+PVGGGCRK 
Sbjct:    48 PQPPELALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGCRKN 107

Query:    86 KRSSKPKPNS 95
             KRS+     S
Sbjct:   108 KRSTSSAARS 117

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 = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 56/77 (72%), Positives = 64/77 (83%)

Query:    28 QNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKR 87
             Q+ Q LKCPRC+S NTKFCYYNNY+LSQPRHFCK+CRRYWT+GG LRNVP+GGGCRKTK+
Sbjct:    36 QDQQNLKCPRCNSPNTKFCYYNNYSLSQPRHFCKSCRRYWTRGGALRNVPIGGGCRKTKK 95

Query:    88 SSKPK------PNSESS 98
             S KP       P+S SS
Sbjct:    96 SIKPNSSMNTLPSSSSS 112

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:2056588 AT2G28510 [Arabidopsis thaliana (taxid:3702)]

 Score = 291 (107.5 bits), Expect = 2.5e-28, Sum P(2) = 2.5e-28
 Identities = 48/59 (81%), Positives = 54/59 (91%)

Query:    31 QALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSS 89
             +A  CPRC+S NTKFCYYNNY+LSQPR+FCK+CRRYWTKGG LRNVPVGGGCR+ KRSS
Sbjct:    46 EAQNCPRCESPNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGTLRNVPVGGGCRRNKRSS 104

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

GO:0005730 "nucleolus" evidence=IDA

TAIR|locus:2026595 OBP2 [Arabidopsis thaliana (taxid:3702)]

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 52/84 (61%), Positives = 63/84 (75%)

Query:    33 LKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKPK 92
             LKCPRCDS NTKFCYYNNYNL+QPRHFCK CRRYWT+GG LRNVPVGGGCR+  +  K  
Sbjct:    85 LKCPRCDSSNTKFCYYNNYNLTQPRHFCKGCRRYWTQGGALRNVPVGGGCRRNNKKGKNG 144

Query:    93 --PNSESSAXXXXXXXXEAPAAGE 114
                +S SS+        ++P++G+
Sbjct:   145 NLKSSSSSSKQSSSVNAQSPSSGQ 168

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0009611 "response to wounding" evidence=IEP

GO:0009625 "response to insect" evidence=IEP

GO:0009753 "response to jasmonic acid stimulus" evidence=IEP

GO:0010439 "regulation of glucosinolate biosynthetic process" evidence=IEP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0042742 "defense response to bacterium" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

GO:0003002 "regionalization" evidence=IMP

TAIR|locus:2017567 DOF1 "DOF zinc finger protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 53/70 (75%), Positives = 58/70 (82%)

Query:    26 PHQNHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKT 85
             P Q  + LKCPRCDS NTKFCYYNNYNLSQPRHFCKNCRRYWTKGG LRN+PVGGG RK+
Sbjct:    28 PEQ--EQLKCPRCDSPNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGALRNIPVGGGTRKS 85

Query:    86 KRSSKPKPNS 95
              + S   P+S
Sbjct:    86 NKRSGSSPSS 95

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

GO:0010200 "response to chitin" evidence=IEP

TAIR|locus:2053175 AT2G28810 [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 50/68 (73%), Positives = 56/68 (82%)

Query:    32 ALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSSKP 91
             ALKCPRCDS NTKFCY+NNYNL+QPRHFCK CRRYWT+GG LRNVPVGGGCR+ K+    
Sbjct:    93 ALKCPRCDSANTKFCYFNNYNLTQPRHFCKACRRYWTRGGALRNVPVGGGCRRNKKGKSG 152

Query:    92 KPNSESSA 99
                S SS+
Sbjct:   153 NSKSSSSS 160

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

TAIR|locus:2094746 DOF2 "DOF zinc finger protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 54/82 (65%), Positives = 61/82 (74%)

Query:    31 QALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRK--TKRS 88
             + LKCPRCDS NTKFCYYNNYNLSQPRHFCK+CRRYWTKGG LRNVPVGGG RK  TKRS
Sbjct:    27 EQLKCPRCDSPNTKFCYYNNYNLSQPRHFCKSCRRYWTKGGALRNVPVGGGSRKNATKRS 86

Query:    89 SKPKPNSESSAXXXXXXXXEAP 110
             +    ++ S +        + P
Sbjct:    87 TSSSSSASSPSNSSQNKKTKNP 108

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

GO:0019344 "cysteine biosynthetic process" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8LDR0	DOF54_ARATH	No assigned EC number	0.4371	0.8121	0.8729	yes	no

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: GSVIVG00017546001 SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (270 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	330
pfam02701	63	pfam02701, zf-Dof, Dof domain, zinc finger	3e-40
PRK13914	481	PRK13914, PRK13914, invasion associated secreted e	3e-05

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

 Score =  134 bits (340), Expect = 3e-40
 Identities = 51/59 (86%), Positives = 55/59 (93%)

Query: 31 QALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSS 89
          +ALKCPRCDS+NTKFCYYNNYNL+QPR+FCKNCRRYWT GG LRNVPVGGG RK KRSS
Sbjct: 4  KALKCPRCDSMNTKFCYYNNYNLNQPRYFCKNCRRYWTAGGALRNVPVGGGRRKNKRSS 62

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

>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase; Provisional

 Score = 45.2 bits (106), Expect = 3e-05
 Identities = 24/93 (25%), Positives = 49/93 (52%), Gaps = 3/93 (3%)

Query: 101 TQTQTQTEAPAAGERDRKANSHSSSESSSTLTVTNNNNNNNNTSVETVSVHSSSSVSNVL 160
           TQ QT  +AP    +   A S +++ ++ T T TN N NN NTS  + + +++++ +   
Sbjct: 289 TQQQTAPKAPTEAAKPAPAPS-TNTNANKTNTNTNTNTNNTNTSTPSKNTNTNTNSNTNT 347

Query: 161 SAMNNNNNNNNNDPGFETAPTTALLDQASSDCG 193
           ++  N N  ++N+     +  +A++ +A    G
Sbjct: 348 NSNTNANQGSSNNN--SNSSASAIIAEAQKHLG 378

Length = 481

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	330
PF02701	63	zf-Dof: Dof domain, zinc finger; InterPro: IPR0038	100.0
TIGR02159	146	PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subu	93.58
PF12760	46	Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int	93.19
COG3677	129	Transposase and inactivated derivatives [DNA repli	92.6
PF03811	36	Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR0	90.82
smart00440	40	ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo	88.57
PF01096	39	TFIIS_C: Transcription factor S-II (TFIIS); InterP	85.3
PF13453	41	zf-TFIIB: Transcription factor zinc-finger	80.97
PF04216	290	FdhE: Protein involved in formate dehydrogenase fo	80.31

>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=1.4e-37  Score=236.95  Aligned_cols=61  Identities=84%  Similarity=1.578  Sum_probs=58.9

Q ss_pred             CCCccCCCCCCCCCceeeeecccCCCCCCccccccccccccCcccccccCCCCcCCCCCCC
Q 036178           29 NHQALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRNVPVGGGCRKTKRSS   89 (330)
Q Consensus        29 ~~~~l~CPRC~S~nTKFCYYNNYn~~QPRhfCKsCrRYWT~GGtLRNVPVGGG~RKnKrss   89 (330)
                      +++.++||||+|.||||||||||++.||||||++|+||||+||+||||||||||||+|+++
T Consensus         2 ~~~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG~lRnVPvggg~Rk~k~~~   62 (63)
T PF02701_consen    2 PEQPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGGTLRNVPVGGGCRKNKRSS   62 (63)
T ss_pred             CccCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcceecCCccCCCcccCCcCC
Confidence            4689999999999999999999999999999999999999999999999999999999876

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=93.58  E-value=0.027  Score=48.52  Aligned_cols=34  Identities=24%  Similarity=0.705  Sum_probs=27.2

Q ss_pred             ccCCCCCCCCCceeeeeccc--CCCCCCcccccccccc
Q 036178           32 ALKCPRCDSLNTKFCYYNNY--NLSQPRHFCKNCRRYW   67 (330)
Q Consensus        32 ~l~CPRC~S~nTKFCYYNNY--n~~QPRhfCKsCrRYW   67 (330)
                      ...||||.|.+|+..  +.|  +.++.-|+|++|+.=+
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            589999999999965  555  4567779999998643

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=93.19  E-value=0.08  Score=37.18  Aligned_cols=29  Identities=34%  Similarity=0.787  Sum_probs=23.4

Q ss_pred             CccCCCCCCCCCceeeeecccCCCCCCcccccccc
Q 036178           31 QALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRR   65 (330)
Q Consensus        31 ~~l~CPRC~S~nTKFCYYNNYn~~QPRhfCKsCrR   65 (330)
                      .+..||+|.+.  ++..+.+    ..+|.|++|++
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            34779999998  6666666    78999999985

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

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

Probab=92.60  E-value=0.086  Score=44.59  Aligned_cols=36  Identities=31%  Similarity=0.615  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCceeeeecccCCCCCCcccccccccccc
Q 036178           32 ALKCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTK   69 (330)
Q Consensus        32 ~l~CPRC~S~nTKFCYYNNYn~~QPRhfCKsCrRYWT~   69 (330)
                      ...||+|.+.+  +-=+.-+.....||.|++|++-|+.
T Consensus        30 ~~~cP~C~s~~--~~k~g~~~~~~qRyrC~~C~~tf~~   65 (129)
T COG3677          30 KVNCPRCKSSN--VVKIGGIRRGHQRYKCKSCGSTFTV   65 (129)
T ss_pred             cCcCCCCCccc--eeeECCccccccccccCCcCcceee
Confidence            47899999999  3335555555999999999998874

>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=90.82  E-value=0.16  Score=35.30  Aligned_cols=31  Identities=39%  Similarity=0.764  Sum_probs=21.7

Q ss_pred             ccCCCCCCCCCceeeeecccCCC-CCCccccccc
Q 036178           32 ALKCPRCDSLNTKFCYYNNYNLS-QPRHFCKNCR   64 (330)
Q Consensus        32 ~l~CPRC~S~nTKFCYYNNYn~~-QPRhfCKsCr   64 (330)
                      .+.||+|.+.+.  -|=|-.+.. ..||+|++|+
T Consensus         5 ~v~CP~C~s~~~--v~k~G~~~~G~qryrC~~C~   36 (36)
T PF03811_consen    5 DVHCPRCQSTEG--VKKNGKSPSGHQRYRCKDCR   36 (36)
T ss_pred             eeeCCCCCCCCc--ceeCCCCCCCCEeEecCcCC
Confidence            478999999872  123444433 5899999996

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=88.57  E-value=0.49  Score=32.98  Aligned_cols=37  Identities=22%  Similarity=0.693  Sum_probs=27.6

Q ss_pred             cCCCCCCCCCceeeeecccCCCCC---Ccccccccccccc
Q 036178           33 LKCPRCDSLNTKFCYYNNYNLSQP---RHFCKNCRRYWTK   69 (330)
Q Consensus        33 l~CPRC~S~nTKFCYYNNYn~~QP---RhfCKsCrRYWT~   69 (330)
                      .+||+|...+.-|-..+-.+...|   -|.|.+|...|..
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            379999877777655555555555   4999999999963

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=85.30  E-value=0.77  Score=31.79  Aligned_cols=36  Identities=28%  Similarity=0.747  Sum_probs=23.8

Q ss_pred             cCCCCCCCCCceeeeecccCCCCCC---ccccccccccc
Q 036178           33 LKCPRCDSLNTKFCYYNNYNLSQPR---HFCKNCRRYWT   68 (330)
Q Consensus        33 l~CPRC~S~nTKFCYYNNYn~~QPR---hfCKsCrRYWT   68 (330)
                      .+||.|...+.-|=-.+.....-|-   |.|.+|..-|+
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            3799999977665555555555443   89999999885

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 ....

>PF13453 zf-TFIIB: Transcription factor zinc-finger

Probab=80.97  E-value=0.51  Score=32.42  Aligned_cols=37  Identities=27%  Similarity=0.606  Sum_probs=27.2

Q ss_pred             CCCCCCCCCceeeeecccCCCCCCccccccccccccCccccc
Q 036178           34 KCPRCDSLNTKFCYYNNYNLSQPRHFCKNCRRYWTKGGVLRN   75 (330)
Q Consensus        34 ~CPRC~S~nTKFCYYNNYn~~QPRhfCKsCrRYWT~GGtLRN   75 (330)
                      +||+|...-...-+     ..-+-+.|..|.-.|=..|.+..
T Consensus         1 ~CP~C~~~l~~~~~-----~~~~id~C~~C~G~W~d~~el~~   37 (41)
T PF13453_consen    1 KCPRCGTELEPVRL-----GDVEIDVCPSCGGIWFDAGELEK   37 (41)
T ss_pred             CcCCCCcccceEEE-----CCEEEEECCCCCeEEccHHHHHH
Confidence            69999985555444     23566889999999988776654

>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []

Probab=80.31  E-value=0.83  Score=42.04  Aligned_cols=38  Identities=24%  Similarity=0.620  Sum_probs=19.1

Q ss_pred             CccCCCCCCCCC-ceeeeecc-cCCCCCCccccccccccc
Q 036178           31 QALKCPRCDSLN-TKFCYYNN-YNLSQPRHFCKNCRRYWT   68 (330)
Q Consensus        31 ~~l~CPRC~S~n-TKFCYYNN-Yn~~QPRhfCKsCrRYWT   68 (330)
                      ....||.|...+ .++-||.. -....--+.|+.|+.|+-
T Consensus       210 ~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK  249 (290)
T PF04216_consen  210 VRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLK  249 (290)
T ss_dssp             -TTS-TTT---SS-EEE--------SEEEEEETTTTEEEE
T ss_pred             cCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHH
Confidence            457899999855 56667633 333333499999999983

The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.

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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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	330
1qyp_A	57	RNA polymerase II; transcription, RPB9, Zn ribbon,	81.52
1tfi_A	50	Transcriptional elongation factor SII; transcripti	80.59

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

Probab=81.52  E-value=1  Score=31.66  Aligned_cols=38  Identities=18%  Similarity=0.553  Sum_probs=25.2

Q ss_pred             ccCCCCCCCCCceeeeecccCCCCC---Ccccccccccccc
Q 036178           32 ALKCPRCDSLNTKFCYYNNYNLSQP---RHFCKNCRRYWTK   69 (330)
Q Consensus        32 ~l~CPRC~S~nTKFCYYNNYn~~QP---RhfCKsCrRYWT~   69 (330)
                      ..+||+|...+..|--.+-.....|   .|.|..|.--|..
T Consensus        15 ~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~   55 (57)
T 1qyp_A           15 KITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS   55 (57)
T ss_dssp             ECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred             EeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence            5789999984433333333333344   3999999999976

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

Probab=80.59  E-value=1.3  Score=31.26  Aligned_cols=38  Identities=18%  Similarity=0.627  Sum_probs=28.1

Q ss_pred             CccCCCCCCCCCceeeeecccCCCCCC---ccccccccccc
Q 036178           31 QALKCPRCDSLNTKFCYYNNYNLSQPR---HFCKNCRRYWT   68 (330)
Q Consensus        31 ~~l~CPRC~S~nTKFCYYNNYn~~QPR---hfCKsCrRYWT   68 (330)
                      ....||+|...+.-|=-.+..+...|-   |.|..|..-|.
T Consensus         8 ~~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~   48 (50)
T 1tfi_A            8 DLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK   48 (50)
T ss_dssp             CCSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred             CccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence            457899999877766555555555553   89999998885

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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	330
d1tfia_	50	Transcriptional factor SII, C-terminal domain {Hum	88.18
d1twfi2	72	RBP9 subunit of RNA polymerase II {Baker's yeast (	87.94

>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=88.18  E-value=0.18  Score=34.77  Aligned_cols=37  Identities=19%  Similarity=0.643  Sum_probs=30.8

Q ss_pred             CccCCCCCCCCCceeeeecccCCCCCC---cccccccccc
Q 036178           31 QALKCPRCDSLNTKFCYYNNYNLSQPR---HFCKNCRRYW   67 (330)
Q Consensus        31 ~~l~CPRC~S~nTKFCYYNNYn~~QPR---hfCKsCrRYW   67 (330)
                      ..++||+|.+.+..|--++..+...|-   +.|..|..-|
T Consensus         8 ~~~~C~kC~~~~~~~~~~QtRSADEp~T~F~~C~~Cg~~W   47 (50)
T d1tfia_           8 DLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRW   47 (50)
T ss_dssp             CCSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEE
T ss_pred             CCEECCCCCCCccEEEEEEccCCCCCceEEEEccccCCee
Confidence            467999999988887777777777776   8999999888

>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=87.94  E-value=0.23  Score=36.20  Aligned_cols=41  Identities=20%  Similarity=0.463  Sum_probs=31.2

Q ss_pred             ccCCCCCCCCCceeeeecccCCCCCC---ccccccccccccCcc
Q 036178           32 ALKCPRCDSLNTKFCYYNNYNLSQPR---HFCKNCRRYWTKGGV   72 (330)
Q Consensus        32 ~l~CPRC~S~nTKFCYYNNYn~~QPR---hfCKsCrRYWT~GGt   72 (330)
                      -..||+|...+.-|-+.+-.+..-|-   |.|..|.-.|+..++
T Consensus        23 ~~~CpkCg~~~a~~~q~QtRsaDE~mT~Fy~C~~C~h~Wr~~~~   66 (72)
T d1twfi2          23 DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK   66 (72)
T ss_dssp             CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred             CCCCCCCCCCeEEEEEeecCccCCCceEEEEcCCCCCCcccccc
Confidence            47999999877777666665554443   899999999998543