Citrus Sinensis ID: 043617

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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-
Protein Sequence
MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDTFSKT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEEEEccccccccHHHHHcccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHccccccccccccccccccccEEEEEEccccccccHHcHHHHHHEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccc
Coil and Loop (DISEMBL)
mervwnhkpnveispncprcgssntkfcyynnysltqpryfckgcrrywtkggslrnvpvgggcrknrrgksvrlstdgVSSKALSYMGEINKVNgfleststsslmqqqdgshIDIALVFAnflnqppeekpagsfelpefpdidpsmefnscmvstnlesrvqlpeenvnnglvrslsfsdlssaetqthfrdndqsyYSMFDSVqkhghhvqdgiqsnqvlpplpseeILWLNSQMMMNQSLQAAAAAAthepmlgpaddhqaqdpnnllfgnwspfdfssddtfskt
Flexible Loop (DISEMBL)
mervwnhkpnveispncprcgssNTKFCYYNNYSLTQPRYFCKGCRRYWTkggslrnvpvgggcrknrrgksvrlstdgvsskalSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSpfdfssddtfskt
Low Complexity Region (SEG)
MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWlnsqmmmnqslqaaaaaaTHEPMLGPADDHQAQDPNNLLFGNWSPfdfssddtfsKT
Disordered region (IsUnstruct)
****************CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGC**********************YMGEINKVNGF****************HIDIALVFANFL*********************************************************************************************************EILWLN************************************LFGNW**************
Disordered Region (DISOPRED)
*****************PRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLR******************************************************************************************************************************************************************************************************************QDPNNLLFGNWSPFDFSSDDTFS**
Disordered Region (DISEMBL)
********PNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNR************SSKALSYMGEINKVNGFLEST********QDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMMNQSL********HEPMLGPADDHQAQDPNNLLFGNWSPFDFS********
Disordered Region (DISPRO)
************ISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGC***********************************************GSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFD**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDTFSKT
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	291	2.2.26 [Sep-21-2011]
Q9SVC5	247	Dof zinc finger protein D	yes	no	0.769	0.906	0.392	7e-42
P68349	260	Dof zinc finger protein D	no	no	0.347	0.388	0.571	2e-29
Q84TE9	257	Dof zinc finger protein D	no	no	0.374	0.424	0.516	3e-29
Q8LAP8	342	Dof zinc finger protein D	no	no	0.213	0.181	0.790	2e-26
Q43385	296	Dof zinc finger protein D	no	no	0.185	0.182	0.888	9e-26
Q9M2U1	323	Dof zinc finger protein D	no	no	0.237	0.213	0.739	3e-25
Q8L9V6	331	Dof zinc finger protein D	no	no	0.202	0.178	0.8	3e-25
Q8LE43	288	Dof zinc finger protein D	no	no	0.195	0.197	0.842	4e-25
O80928	330	Dof zinc finger protein D	no	no	0.206	0.181	0.783	5e-25
O24463	328	Dof zinc finger protein P	N/A	no	0.274	0.243	0.6	1e-24

>sp|Q9SVC5|DOF35_ARATH Dof zinc finger protein DOF3.5 OS=Arabidopsis thaliana GN=DOF3.5 PE=3 SV=1

 Score =  171 bits (432), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 115/293 (39%), Positives = 152/293 (51%), Gaps = 69/293 (23%)

Query: 4   VW--NHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG 61
           +W  N   N EI+P+CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG
Sbjct: 12  IWRPNANANAEITPSCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG 71

Query: 62  GGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVF 121
           GGCRK+RR K    S+ G ++K                S + +S         ID+ALV+
Sbjct: 72  GGCRKSRRPK----SSSGNNTKT---------------SLTANSGNPGGGSPSIDLALVY 112

Query: 122 ANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSF 181
           ANFLN  P+E                S+   +C ++T  +  V  P              
Sbjct: 113 ANFLNPKPDE----------------SILQENCDLATT-DFLVDNPTG------------ 143

Query: 182 SDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEILWLNSQMMM 241
              +S +       ND  +    + V+    H+ +    N  LPP P EE+L L++  + 
Sbjct: 144 ---TSMDPSWSMDINDGHHDHYINPVE----HIVEECGYNG-LPPFPGEELLSLDTNGVW 195

Query: 242 NQSL---------QAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSD 285
           + +L               A HEP++  AD  ++ D  NLLFG+WSPFDF++D
Sbjct: 196 SDALLIGHNHVDVGVTPVQAVHEPVVHFAD--ESNDSTNLLFGSWSPFDFTAD 246

Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence.
Arabidopsis thaliana (taxid: 3702)

>sp|P68349|DOF12_ARATH Dof zinc finger protein DOF1.2 OS=Arabidopsis thaliana GN=DOF1.2 PE=2 SV=1

 Score =  129 bits (325), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 64/112 (57%), Positives = 74/112 (66%), Gaps = 11/112 (9%)

Query: 14  SPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSV 73
           +P CPRC SSNTKFCYYNNYSL+QPRYFCKGCRRYWTKGGSLRN+PVGGGCRK  R +  
Sbjct: 37  APACPRCASSNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNIPVGGGCRKRSRSRQN 96

Query: 74  RLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFL 125
                G +       G IN+ +GF  S           GS ID+A VFA ++
Sbjct: 97  SHKRFGRNENRPD--GLINQDDGFQSSPP---------GSDIDLAAVFAQYV 137

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 =  129 bits (323), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 61/118 (51%), Positives = 77/118 (65%), Gaps = 9/118 (7%)

Query: 12  EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGK 71
           E++  CPRC S+NTKFCYYNNYSLTQPRYFCK CRRYWTKGG+LRN+PVGGGCRKN+R  
Sbjct: 52  ELALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGCRKNKRST 111

Query: 72  SVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPP 129
           S    +   + +  S+ G++    GF   +         +  HID++L FA    Q P
Sbjct: 112 SSAARSLRTTPEPASHDGKVFSAAGFNGYS---------NNEHIDLSLAFALLNKQHP 160

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

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 =  119 bits (298), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 49/62 (79%), Positives = 56/62 (90%)

Query: 8   KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKN 67
           +P  + + NCPRC S+NTKFCYYNNYSLTQPRYFCKGCRRYWT+GGSLRN+PVGGG RKN
Sbjct: 46  RPEKDQAVNCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNIPVGGGSRKN 105

Query: 68  RR 69
           +R
Sbjct: 106 KR 107

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  117 bits (293), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 48/54 (88%), Positives = 51/54 (94%)

Query: 16  NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRR 69
           NCPRC S+NTKFCYYNNYSLTQPRYFCKGCRRYWT+GGSLRNVPVGG  RKN+R
Sbjct: 75  NCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNVPVGGSSRKNKR 128

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

 Score =  115 bits (289), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 51/69 (73%), Positives = 58/69 (84%)

Query: 9   PNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNR 68
           P  E + NCPRC S+NTKFCY+NNYSLTQPR+FCK CRRYWT+GGSLRNVPVGGG R+N+
Sbjct: 70  PLPEAALNCPRCDSTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGSLRNVPVGGGFRRNK 129

Query: 69  RGKSVRLST 77
           R KS   ST
Sbjct: 130 RSKSRSKST 138

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

 Score =  115 bits (288), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 48/60 (80%), Positives = 56/60 (93%), Gaps = 1/60 (1%)

Query: 17  CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRK-NRRGKSVRL 75
           CPRC SSNTKFCYYNNY+LTQPR+FCKGCRRYWT+GG+LRNVPVGGGCR+ N++GK+  L
Sbjct: 79  CPRCDSSNTKFCYYNNYNLTQPRHFCKGCRRYWTQGGALRNVPVGGGCRRNNKKGKNGNL 138

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|Q8LE43|DOF21_ARATH Dof zinc finger protein DOF2.1 OS=Arabidopsis thaliana GN=DOF2.1 PE=2 SV=2

 Score =  115 bits (288), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 48/57 (84%), Positives = 52/57 (91%)

Query: 16  NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKS 72
           NCPRC S NTKFCYYNNYSL+QPRYFCK CRRYWTKGG+LRNVPVGGGCR+N+R  S
Sbjct: 49  NCPRCESPNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGTLRNVPVGGGCRRNKRSSS 105

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 =  115 bits (287), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 47/60 (78%), Positives = 54/60 (90%)

Query: 12  EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGK 71
           E +  CPRC S+NTKFCY+NNYSLTQPR+FCK CRRYWT+GG+LRNVPVGGGCR+NRR K
Sbjct: 86  EAALKCPRCESTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNRRTK 145

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 =  114 bits (284), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 48/80 (60%), Positives = 60/80 (75%)

Query: 8   KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKN 67
           +P +  +  CPRC S+NTKFCYYNNYS++QPRYFCK CRRYWT GG+LRNVP+GGGCRKN
Sbjct: 53  RPQLPEALKCPRCDSNNTKFCYYNNYSMSQPRYFCKACRRYWTHGGTLRNVPIGGGCRKN 112

Query: 68  RRGKSVRLSTDGVSSKALSY 87
           +      L +   SS + +Y
Sbjct: 113 KHASRFVLGSHTSSSSSATY 132

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)

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	291
255566147	308	zinc finger protein, putative [Ricinus c	0.951	0.899	0.512	2e-67
224091447	288	f-box family protein [Populus trichocarp	0.924	0.934	0.522	3e-66
147863094	270	hypothetical protein VITISV_023330 [Viti	0.865	0.933	0.49	1e-60
296083144	270	unnamed protein product [Vitis vinifera]	0.865	0.933	0.49	2e-60
224138314	225	f-box family protein [Populus trichocarp	0.728	0.942	0.483	5e-57
356537198	288	PREDICTED: dof zinc finger protein DOF3.	0.903	0.913	0.471	7e-54
356498677	307	PREDICTED: dof zinc finger protein DOF3.	0.927	0.879	0.457	3e-53
351721607	271	Dof16 [Glycine max] gi|112363386|gb|ABI1	0.876	0.940	0.413	1e-48
356572627	271	PREDICTED: dof zinc finger protein DOF3.	0.876	0.940	0.410	2e-47
449437870	255	PREDICTED: dof zinc finger protein DOF3.	0.831	0.949	0.412	1e-42

>gi|255566147|ref|XP_002524061.1| zinc finger protein, putative [Ricinus communis] gi|223536629|gb|EEF38271.1| zinc finger protein, putative [Ricinus communis]

 Score =  261 bits (667), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 165/322 (51%), Positives = 199/322 (61%), Gaps = 45/322 (13%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           M+R W  KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 1   MDRGW--KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 58

Query: 61  GGGCRKNRRGKSVRL-STDGVSSKALSYMG-------EINKVNGFLESTSTSSLMQQQDG 112
           GGGCRKNRRGKS+RL STD   SK+L Y G        ++   G   S  + S   + +G
Sbjct: 59  GGGCRKNRRGKSLRLSSTDVAQSKSLGYGGVTADSTRHVHGYKGINPSIESCSSSTRSNG 118

Query: 113 SHIDIALVFANFLN-QPPEEKPAGS-FELPEFPD--IDPSMEFNSCMVSTNLES-RVQLP 167
           SHID+ALV+ANFLN Q P+ K A S FE+ E      DPS++F S + + NL+S  VQL 
Sbjct: 119 SHIDLALVYANFLNPQQPDPKTASSGFEMQELGSDHFDPSLDF-SGISNVNLDSTTVQLH 177

Query: 168 EENVNN--GLVRSLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQD-------GI 218
           +   +N  G + ++S S +    +  H       +Y   DS  KH     D        I
Sbjct: 178 DIGDHNFAGCIPAISDSSMGDPPSDNH----QLMHYCGVDSSSKHKQEANDHKIPQCTSI 233

Query: 219 QSNQV---LPPLP-----SEEILWLNSQMM-MNQSLQAAAAAATHEPMLGPADDHQAQDP 269
             + +   LPPLP     S+EILW +S MM  + +LQ     A    +LGP    Q QDP
Sbjct: 234 THDPINYGLPPLPGEEIGSQEILWPSSHMMEHSHTLQVTQQQA----VLGPD---QTQDP 286

Query: 270 NNLLFGNWSPFDFSSDDTFSKT 291
           N LLFGNWSPFD SSDD FS++
Sbjct: 287 NTLLFGNWSPFDLSSDDAFSRS 308

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224091447|ref|XP_002309254.1| f-box family protein [Populus trichocarpa] gi|222855230|gb|EEE92777.1| f-box family protein [Populus trichocarpa]

 Score =  258 bits (658), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 162/310 (52%), Positives = 194/310 (62%), Gaps = 41/310 (13%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME  W  K N EISP+CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 1   METGW--KGNSEISPSCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 58

Query: 61  GGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQ------DGSH 114
           GGGCRKNRRGKS+RLS++   SK+    G  N       S   +S ++        DGSH
Sbjct: 59  GGGCRKNRRGKSLRLSSND-HSKSFGCGGLPNNSIRHPHSHKGNSSIESSSSPMIPDGSH 117

Query: 115 IDIALVFANFLNQPPEEKPAGSFELPEFP-DIDPSMEFNSCMVSTNLESRVQLPEENVNN 173
           ID+ALV+A FLN  P++      E+PEF  + DPS+ F + +++TNLE   QL EEN   
Sbjct: 118 IDLALVYAKFLN--PQQDSKSGCEVPEFTSEFDPSLIFTN-ILNTNLEPSSQLSEENGPA 174

Query: 174 GLVRSLSFSDLSSAETQTHFRDNDQ-SYYSMFDSVQKHGHHVQDGIQ--SNQV----LPP 226
           G + +  FS      T+    DND   YY   DS  KH  H     Q  SN      LPP
Sbjct: 175 GCLTTSDFS------TKAPLSDNDHLMYYYSLDSAHKHQDHQDRTKQCTSNDTSSFHLPP 228

Query: 227 LP-----SEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFD 281
           LP     S+EILW NS +M N +L+ +      +P+LGP    + QDP NLLFGNWSPFD
Sbjct: 229 LPGQDTASQEILWSNSHLMGNHNLEMS-----QQPVLGP----ETQDP-NLLFGNWSPFD 278

Query: 282 FSSDDTFSKT 291
            SSDDTFS++
Sbjct: 279 LSSDDTFSRS 288

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147863094|emb|CAN82980.1| hypothetical protein VITISV_023330 [Vitis vinifera]

 Score =  239 bits (610), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 147/300 (49%), Positives = 180/300 (60%), Gaps = 48/300 (16%)

Query: 4   VWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG 63
           VW  K NVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG
Sbjct: 5   VW--KANVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG 62

Query: 64  CRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFL-ESTSTSSLMQQQDGSHIDIALVFA 122
           CRKNRRGKS R+ TD ++SK L+   + +     L +S +TSS +     S+ID+ALV+A
Sbjct: 63  CRKNRRGKSFRILTDRLASKGLASDPDPDPSGSALADSATTSSGLHDASASNIDLALVYA 122

Query: 123 NFLNQPPEEKPAGSFELPEFP-DIDPSMEFNSCMVSTNL---ESRVQLPEENVNNGLVRS 178
           NFLNQ PE K  G FE+PE P +  PS + +S + ++N     S +QLP +         
Sbjct: 123 NFLNQKPEPKSTG-FEMPELPCEFHPSFQLSSTLSTSNTSLDSSHIQLPPD--------- 172

Query: 179 LSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEI-----L 233
                       TH  +++Q Y S F  +  H  H    I     LPPLP +E+     L
Sbjct: 173 ------------THLSEDNQVYLSGFHPIHTHHDHDSANIYG---LPPLPGQEVASPEML 217

Query: 234 WLNSQMMM-NQSLQAAAAAATHEPMLGPADDHQAQDPNNLLF--GNWSPFDFSSDDTFSK 290
           W  SQ M+ NQ+L        HE  L       AQ PN++    GNWSPFD S  +TFS+
Sbjct: 218 WPISQAMVQNQTL--------HETQLPALHPEAAQHPNHVAVTAGNWSPFDLSCYETFSR 269

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083144|emb|CBI22780.3| unnamed protein product [Vitis vinifera]

 Score =  238 bits (608), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 147/300 (49%), Positives = 180/300 (60%), Gaps = 48/300 (16%)

Query: 4   VWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG 63
           VW  K NVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG
Sbjct: 5   VW--KANVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGG 62

Query: 64  CRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFL-ESTSTSSLMQQQDGSHIDIALVFA 122
           CRKNRRGKS R+ TD ++SK L+   + +     L +S +TSS +     S+ID+ALV+A
Sbjct: 63  CRKNRRGKSFRILTDRLASKGLASDPDPDPSGSALADSATTSSGLHDASASNIDLALVYA 122

Query: 123 NFLNQPPEEKPAGSFELPEFP-DIDPSMEFNSCMVSTNL---ESRVQLPEENVNNGLVRS 178
           NFLNQ PE K  G FE+PE P +  PS + +S + ++N     S +QLP +         
Sbjct: 123 NFLNQMPEPKSTG-FEMPELPCEFHPSFQLSSTLSTSNTSLDSSHIQLPPD--------- 172

Query: 179 LSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQVLPPLPSEEI-----L 233
                       TH  +++Q Y S F  +  H  H    I     LPPLP +E+     L
Sbjct: 173 ------------THLSEDNQVYLSGFHPIHTHHDHDSANIYG---LPPLPGQEVASPEML 217

Query: 234 WLNSQMMM-NQSLQAAAAAATHEPMLGPADDHQAQDPNNLLF--GNWSPFDFSSDDTFSK 290
           W  SQ M+ NQ+L        HE  L       AQ PN++    GNWSPFD S  +TFS+
Sbjct: 218 WPISQAMVQNQTL--------HETQLPALHPEAAQHPNHVAVTAGNWSPFDLSCYETFSR 269

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138314|ref|XP_002322783.1| f-box family protein [Populus trichocarpa] gi|222867413|gb|EEF04544.1| f-box family protein [Populus trichocarpa]

 Score =  227 bits (578), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 147/304 (48%), Positives = 166/304 (54%), Gaps = 92/304 (30%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME  W  K + EISP+CPRCGSSNTKFCY+NNYSLTQPRYFCKGCRRYWT+GGSLRNVPV
Sbjct: 1   METGW--KEHAEISPSCPRCGSSNTKFCYHNNYSLTQPRYFCKGCRRYWTEGGSLRNVPV 58

Query: 61  GGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALV 120
           GGGCRKNRRGKS+RLSTD  SS  +                         DGSHID+ALV
Sbjct: 59  GGGCRKNRRGKSMRLSTDSSSSSMIP------------------------DGSHIDLALV 94

Query: 121 FANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLS 180
           +A FLN   + K                                        NGL  SL+
Sbjct: 95  YAKFLNPQQDSK---------------------------------------KNGLAGSLT 115

Query: 181 FSDLSSAETQTHFRDNDQ-SYYSMFDSVQKHGHHVQDGIQ-------SNQVLPPLP---- 228
            SD S   T     DND   YY   DS  KH  H QD  Q       S+  LPPLP    
Sbjct: 116 ISDFS---TGVPLSDNDHLMYYYSLDSAHKHQDH-QDRTQQCTSHETSSFHLPPLPGQDT 171

Query: 229 -SEEILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDT 287
            S++ILW NS MM N SL+ +      +P+LGP      QDP NLLFGNWSPFD SSDDT
Sbjct: 172 VSQDILWSNSHMMDNHSLEMSP-----QPVLGP----DTQDP-NLLFGNWSPFDMSSDDT 221

Query: 288 FSKT 291
           FS++
Sbjct: 222 FSRS 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356537198|ref|XP_003537116.1| PREDICTED: dof zinc finger protein DOF3.5-like [Glycine max]

 Score =  216 bits (551), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 148/314 (47%), Positives = 181/314 (57%), Gaps = 51/314 (16%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME  W  KP VEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 1   MESGW--KPEVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 58

Query: 61  GGGCRKNRRG-KSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIAL 119
           GGGCRKNRRG K++  + + +     SY   I        S+++SS     DG HID+AL
Sbjct: 59  GGGCRKNRRGNKTLDHNNNPIGH---SYDPRIRT------SSASSSSSVVSDGPHIDLAL 109

Query: 120 VFANFLNQPPEEKPAGSFELPEFPD--IDPSMEFNSCMVSTNLESRVQLPEENVNNGLVR 177
           V+ANFLNQ P  +       P+      DPS+E NS + +T +     LPEE    GL  
Sbjct: 110 VYANFLNQKPNSEARVESTNPDQVQTVFDPSLENNSRLSNTVVVGPNTLPEE---LGLTG 166

Query: 178 SLSFSDLSSAETQTHFRD----NDQSYYSMFDSVQKHGHHVQDGIQS----------NQV 223
            L   +L   + QTH  +    ++Q  Y  F+++Q    H +DGI            N  
Sbjct: 167 CL---NLPEQQPQTHSSEANNNHNQMCYGEFNTMQT--LHQKDGIDQQCSNHGGGAMNFE 221

Query: 224 LPPLPSEE-------ILWLNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGN 276
           LPPLP EE       ++W NS+MM+N      A   T  P+LGP D H A    +LL GN
Sbjct: 222 LPPLPGEEEVSHDHHMMWSNSEMMINHH---HAFQVTQPPLLGP-DVHDA----DLLIGN 273

Query: 277 WSPFDFSSDDTFSK 290
           WS FD   D +FS+
Sbjct: 274 WSSFDLPRDASFSR 287

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356498677|ref|XP_003518176.1| PREDICTED: dof zinc finger protein DOF3.5-like [Glycine max]

 Score =  214 bits (546), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 149/326 (45%), Positives = 179/326 (54%), Gaps = 56/326 (17%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME  W  KP VE+SPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 1   MESGW--KPEVEMSPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 58

Query: 61  GGGCRKNRRGKS--VRLSTDGV----SSKALSYMGEINKVNGFLESTSTSSLMQQQ---- 110
           GGGC+KNRRG    +R S DG     SS    Y  + N  N  L  +    +        
Sbjct: 59  GGGCKKNRRGNKTLLRQSIDGFTFKNSSPPCGYATDHN--NNPLGHSYDPRIRASSASSS 116

Query: 111 -----DGSHIDIALVFANFLNQPPEEKPAGSFELPEFPD-----IDPSMEFNSCMVSTNL 160
                DG +ID+ALVFANFLNQ P     G  E    PD      DPS+E NS + +T++
Sbjct: 117 SSVVTDGPNIDLALVFANFLNQKPNSS-EGGVESSTNPDQEQTVFDPSLENNSRLSNTDV 175

Query: 161 ESRVQLPEENVNNGLVRSLSFSDLSSAETQTHFRD----NDQSYYSMFD---SVQKHG-- 211
                LPEE    GL   L   +L   +  TH  +    N+Q  Y  F+   ++QK G  
Sbjct: 176 VGPSTLPEE---LGLTGCL---NLPEQQPHTHSSEANNNNNQMCYGEFNTMQTLQKDGIE 229

Query: 212 HHVQDGIQSNQVLPPLPSE-------EILWLNSQMMMNQSLQAAAAAATHEPMLGPADDH 264
            +   G   N  LPPLP E        ++W NS+MM+N      A   T  P+LG  + H
Sbjct: 230 QYSSHGGAMNFELPPLPGEGEASHDHHMMWSNSEMMINHH----AFQVTQPPLLG-LEVH 284

Query: 265 QAQDPNNLLFGNWSPFDFSSDDTFSK 290
            A    +LL GNWSPFD   D +FS+
Sbjct: 285 DA----DLLIGNWSPFDSPKDTSFSR 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721607|ref|NP_001236703.1| Dof16 [Glycine max] gi|112363386|gb|ABI16017.1| Dof16 [Glycine max]

 Score =  199 bits (506), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 125/302 (41%), Positives = 165/302 (54%), Gaps = 47/302 (15%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME+ W    NVEISPNCPRCGS+NTKFCYYNNYS TQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 2   MEKWWKAN-NVEISPNCPRCGSTNTKFCYYNNYSSTQPRYFCKGCRRYWTKGGSLRNVPV 60

Query: 61  GGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALV 120
           GGGCRK+R  K  +               + N   G+ +    S      D   ID+A V
Sbjct: 61  GGGCRKSRSAKYNKT------------FRQANNSVGYSDDLMASPNSVVSDAPSIDLAQV 108

Query: 121 FANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLS 180
           +A+FLNQ P++    +   P  PD      + SC++++       L EE +  GL+  L 
Sbjct: 109 YASFLNQKPDQA-VQTVRYPNEPD------YYSCLLNSTDFGHSALSEEEL--GLIDCLH 159

Query: 181 FSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQ----SNQVLPPLPSEE----- 231
           F + S   T++HF ++ Q Y   F+S+Q H  +          +N  LPPLP EE     
Sbjct: 160 FHEQS---TESHFGESIQMYLFGFNSIQNHQEYYSSSYDTTNNTNFELPPLPGEETEISH 216

Query: 232 --ILW--LNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDT 287
             +LW   NS+MM++ +LQ     A+  P+ GP    Q  D + ++   WS FD   D +
Sbjct: 217 GDMLWSKSNSEMMLDHALQ-----ASQPPLFGP----QFHDADFIMGNCWSHFDLPRDAS 267

Query: 288 FS 289
           FS
Sbjct: 268 FS 269

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572627|ref|XP_003554469.1| PREDICTED: dof zinc finger protein DOF3.5-like [Glycine max]

 Score =  195 bits (496), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 124/302 (41%), Positives = 163/302 (53%), Gaps = 47/302 (15%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           ME+ W    NVEISPNCPRCGS+NTKFCYYNNYS TQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 2   MEKWWKAN-NVEISPNCPRCGSTNTKFCYYNNYSSTQPRYFCKGCRRYWTKGGSLRNVPV 60

Query: 61  GGGCRKNRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALV 120
           GGGCRK+R  K  +               + N   G+ +    S      D   ID+A V
Sbjct: 61  GGGCRKSRSAKYNKT------------FRQANNSVGYSDDLMASPNSVVSDAPSIDLAQV 108

Query: 121 FANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLS 180
           +A+FLNQ P++    +   P  PD      + SC+++T       L EE +  GL   L 
Sbjct: 109 YASFLNQKPDQA-VQTVRYPNEPD------YYSCLLNTTDFGHSALSEEEL--GLTDCLH 159

Query: 181 FSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQ----SNQVLPPLPSEE----- 231
           F + S   T++HF ++ Q Y   F+S+  H  +          +N  LP LP EE     
Sbjct: 160 FHEQS---TESHFGESFQMYLFGFNSIHNHQEYYSSSYDTTNNTNFELPQLPGEETEISH 216

Query: 232 --ILW--LNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDT 287
             +LW   NS+MM++ +LQ     A+  P+ GP    Q+ D + ++   WS FD   D +
Sbjct: 217 GDMLWSKSNSEMMLDHALQ-----ASQPPLFGP----QSHDADFIMGNCWSHFDLPRDAS 267

Query: 288 FS 289
           FS
Sbjct: 268 FS 269

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437870|ref|XP_004136713.1| PREDICTED: dof zinc finger protein DOF3.5-like [Cucumis sativus]

 Score =  179 bits (454), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 122/296 (41%), Positives = 158/296 (53%), Gaps = 54/296 (18%)

Query: 1   MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60
           MER W  KP VEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV
Sbjct: 1   MERGW--KPMVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 58

Query: 61  GGGCRKNRRGKSVRLSTDGVSSKALSYM--GEINKVNGFLESTSTSSLMQQQDGSHIDIA 118
           GGGCRKNRR       T   S+    +    +  + +  L  +  S          ID+A
Sbjct: 59  GGGCRKNRRSPKPLTLTPSSSNPKFHHTNDSDYQRYHCGLSDSDVSPT--------IDLA 110

Query: 119 LVFANFLNQPPEEKPAGSFELPE-FPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVR 177
           +V+ANF+NQ P        + PE  P  + +  F       +++SRV           V 
Sbjct: 111 VVYANFVNQKP--------DTPETIPTSNAAGHF-----PVSVQSRV-----------VG 146

Query: 178 SLSFSDLSSAETQTHFRDNDQSYYSMFDSVQKHGHHVQDGIQSNQV-LPPLPSEEIL--W 234
             +F + S  E       ND         +++  ++ +  + + ++ LPPLP E+++  W
Sbjct: 147 CGNFCEFSMQECG--LGANDYQVGGGCFGLEESSNNNESQVAARELQLPPLPGEDMVEAW 204

Query: 235 LNSQMMMNQSLQAAAAAATHEPMLGPADDHQAQDPNNLLFGNWSPFDFSSDDTFSK 290
            NS +M+N   +           L P      +DP NLL GNWSP D S+ DTFSK
Sbjct: 205 GNSMIMVNNHHR-----------LQPTRVEMFEDP-NLLSGNWSPIDLSNYDTFSK 248

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	291
TAIR|locus:2079954	247	AT3G52440 [Arabidopsis thalian	0.237	0.279	0.845	2.2e-38
TAIR|locus:2056588	288	AT2G28510 [Arabidopsis thalian	0.350	0.354	0.560	2.9e-29
TAIR|locus:2144030	257	TMO6 "TARGET OF MONOPTEROS 6"	0.395	0.447	0.507	5.6e-29
TAIR|locus:2027027	260	AT1G21340 [Arabidopsis thalian	0.347	0.388	0.571	7.1e-29
TAIR|locus:2019499	352	AT1G64620 [Arabidopsis thalian	0.264	0.218	0.675	9.6e-29
TAIR|locus:2134658	294	AT4G00940 [Arabidopsis thalian	0.649	0.642	0.391	2.8e-27
TAIR|locus:2026595	339	OBP2 [Arabidopsis thaliana (ta	0.288	0.247	0.635	3.5e-27
TAIR|locus:2134981	342	AT4G24060 [Arabidopsis thalian	0.223	0.190	0.769	4.5e-27
TAIR|locus:2039959	369	DAG2 "DOF AFFECTING GERMINATIO	0.391	0.308	0.52	9.4e-27
TAIR|locus:2155755	316	AT5G65590 [Arabidopsis thalian	0.240	0.221	0.642	4e-26

TAIR|locus:2079954 AT3G52440 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 2.2e-38, Sum P(2) = 2.2e-38
 Identities = 60/71 (84%), Positives = 64/71 (90%)

Query:     4 VW--NHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG 61
             +W  N   N EI+P+CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG
Sbjct:    12 IWRPNANANAEITPSCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG 71

Query:    62 GGCRKNRRGKS 72
             GGCRK+RR KS
Sbjct:    72 GGCRKSRRPKS 82

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 = 304 (112.1 bits), Expect = 2.9e-29, Sum P(2) = 2.9e-29
 Identities = 60/107 (56%), Positives = 75/107 (70%)

Query:    16 NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRL 75
             NCPRC S NTKFCYYNNYSL+QPRYFCK CRRYWTKGG+LRNVPVGGGCR+N+R  S   
Sbjct:    49 NCPRCESPNTKFCYYNNYSLSQPRYFCKSCRRYWTKGGTLRNVPVGGGCRRNKRSSSSAF 108

Query:    76 STDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFA 122
             S +  ++K++++  +  + N  +     SS     D S ID+ L FA
Sbjct:   109 SKNN-NNKSINFHTDPLQ-NPLITGMPPSSF--GYDHS-IDLNLAFA 150

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

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 65/128 (50%), Positives = 83/128 (64%)

Query:    12 EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGK 71
             E++  CPRC S+NTKFCYYNNYSLTQPRYFCK CRRYWTKGG+LRN+PVGGGCRKN+R  
Sbjct:    52 ELALRCPRCDSTNTKFCYYNNYSLTQPRYFCKSCRRYWTKGGTLRNIPVGGGCRKNKRST 111

Query:    72 SVRLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEE 131
             S    +   + +  S+ G++    GF    S +         HID++L FA  LN+   +
Sbjct:   112 SSAARSLRTTPEPASHDGKVFSAAGF-NGYSNNE--------HIDLSLAFA-LLNK---Q 158

Query:   132 KPAGSFEL 139
              P  S +L
Sbjct:   159 HPGSSSQL 166

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:2027027 AT1G21340 [Arabidopsis thaliana (taxid:3702)]

 Score = 321 (118.1 bits), Expect = 7.1e-29, P = 7.1e-29
 Identities = 64/112 (57%), Positives = 74/112 (66%)

Query:    14 SPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSV 73
             +P CPRC SSNTKFCYYNNYSL+QPRYFCKGCRRYWTKGGSLRN+PVGGGCRK  R +  
Sbjct:    37 APACPRCASSNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNIPVGGGCRKRSRSRQN 96

Query:    74 RLSTDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFL 125
                  G +       G IN+ +GF  S           GS ID+A VFA ++
Sbjct:    97 SHKRFGRNENRPD--GLINQDDGFQSSPP---------GSDIDLAAVFAQYV 137

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 = 296 (109.3 bits), Expect = 9.6e-29, Sum P(2) = 9.6e-29
 Identities = 52/77 (67%), Positives = 59/77 (76%)

Query:     8 KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKN 67
             +P  + + NCPRC S NTKFCYYNNYSLTQPRYFCK CRRYWT GGSLRN+PVGGG RKN
Sbjct:    42 RPEKDQALNCPRCNSLNTKFCYYNNYSLTQPRYFCKDCRRYWTAGGSLRNIPVGGGVRKN 101

Query:    68 RRGKSVRLSTDGVSSKA 84
             +R  S   S+   SS +
Sbjct:   102 KRSSSNSSSSSPSSSSS 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:2134658 AT4G00940 [Arabidopsis thaliana (taxid:3702)]

 Score = 306 (112.8 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 83/212 (39%), Positives = 116/212 (54%)

Query:    16 NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRL 75
             NCPRC SSNTKFCYYNNYSL QPRY CK CRRYWT+GGSLRNVPVGGG RKN++      
Sbjct:    69 NCPRCNSSNTKFCYYNNYSLAQPRYLCKSCRRYWTEGGSLRNVPVGGGSRKNKKLPFPNS 128

Query:    76 STDGVSSKALSYMGEINKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLNQPPEEKPAG 135
             ST   S+K L    ++N    F  S S+S+  +    ++ D++L F++    P ++K A 
Sbjct:   129 STSS-STKNLP---DLNPPFVFTSSASSSNPSKTHQNNN-DLSLSFSS----PMQDKRAQ 179

Query:   136 SFELPEFPDIDPSMEFNSCMVSTNLESRVQLPEENVNNGLVRSLSFS-DLSSAETQTH-- 192
                   F +   +   N C+    +   +Q  +E  +    ++L FS D +  E   H  
Sbjct:   180 G-HYGHFSEQVVTGGQN-CLFQAPM-GMIQFRQEYDHEHPKKNLGFSLDRNEEEIGNHDN 236

Query:   193 FRDNDQSYYSMF-----DSVQKHGHHVQ--DG 217
             F  N++    M+     +  Q+H HHV+  DG
Sbjct:   237 FVVNEEGSKMMYPYGDHEDRQQH-HHVRHDDG 267

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:2026595 OBP2 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 54/85 (63%), Positives = 67/85 (78%)

Query:    17 CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKN-RRGKSVRL 75
             CPRC SSNTKFCYYNNY+LTQPR+FCKGCRRYWT+GG+LRNVPVGGGCR+N ++GK+  L
Sbjct:    87 CPRCDSSNTKFCYYNNYNLTQPRHFCKGCRRYWTQGGALRNVPVGGGCRRNNKKGKNGNL 146

Query:    76 STDGVSSKALSYMGEINKVNGFLES 100
              +   SSK  S +   +  +G L +
Sbjct:   147 KSSSSSSKQSSSVNAQSPSSGQLRT 171

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:2134981 AT4G24060 [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 50/65 (76%), Positives = 57/65 (87%)

Query:     8 KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKN 67
             +P  + + NCPRC S+NTKFCYYNNYSLTQPRYFCKGCRRYWT+GGSLRN+PVGGG RKN
Sbjct:    46 RPEKDQAVNCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNIPVGGGSRKN 105

Query:    68 RRGKS 72
             +R  S
Sbjct:   106 KRSHS 110

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

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 65/125 (52%), Positives = 76/125 (60%)

Query:    16 NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVR- 74
             NCPRC S+NTKFCYYNNYSLTQPRYFCKGCRRYWT+GGSLRNVPVGG  RKN+R  S   
Sbjct:    81 NCPRCNSTNTKFCYYNNYSLTQPRYFCKGCRRYWTEGGSLRNVPVGGSSRKNKRSSSSSS 140

Query:    75 ---LSTDGVSSKALS----YMGEI-NKVNGFLESTSTSSLMQQQDGSHIDIALVFANFLN 126
                L T   S   L+    +  +I NK  G  +  +  S    QD  H  + +  + FL 
Sbjct:   141 SNILQTIPSSLPDLNPPILFSNQIHNKSKGSSQDLNLLSFPVMQDQHHHHVHM--SQFLQ 198

Query:   127 QPPEE 131
              P  E
Sbjct:   199 MPKME 203

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:2155755 AT5G65590 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 4.0e-26, Sum P(2) = 4.0e-26
 Identities = 45/70 (64%), Positives = 55/70 (78%)

Query:    17 CPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKSVRLS 76
             CPRC S NTKFCYYNNYSL+QPR+FCK CRRYWT+GG+LRNVP+GGGCRK ++      S
Sbjct:    43 CPRCNSPNTKFCYYNNYSLSQPRHFCKSCRRYWTRGGALRNVPIGGGCRKTKKSIKPNSS 102

Query:    77 TDGVSSKALS 86
              + + S + S
Sbjct:   103 MNTLPSSSSS 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

---

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: GSVIVG00038908001 SubName- Full=Chromosome chr8 scaffold_99, whole genome shotgun sequence; (255 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	291
pfam02701	63	pfam02701, zf-Dof, Dof domain, zinc finger	4e-39

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

 Score =  131 bits (331), Expect = 4e-39
 Identities = 45/57 (78%), Positives = 48/57 (84%)

Query: 16 NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKS 72
           CPRC S NTKFCYYNNY+L QPRYFCK CRRYWT GG+LRNVPVGGG RKN+R  S
Sbjct: 7  KCPRCDSMNTKFCYYNNYNLNQPRYFCKNCRRYWTAGGALRNVPVGGGRRKNKRSSS 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	291
PF02701	63	zf-Dof: Dof domain, zinc finger; InterPro: IPR0038	100.0
PF12760	46	Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int	94.25
TIGR02159	146	PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subu	93.21
COG3677	129	Transposase and inactivated derivatives [DNA repli	92.6
PF03811	36	Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR0	90.19
smart00440	40	ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo	89.06
PF01096	39	TFIIS_C: Transcription factor S-II (TFIIS); InterP	85.98
PF13453	41	zf-TFIIB: Transcription factor zinc-finger	81.12

>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=1.2e-37  Score=234.60  Aligned_cols=62  Identities=76%  Similarity=1.541  Sum_probs=60.0

Q ss_pred             CCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccCCCCccCCCCCCC
Q 043617           11 VEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGKS   72 (291)
Q Consensus        11 ~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPVGGG~RKnKrsss   72 (291)
                      +++.++||||+|.+|||||||||+++||||||++|+||||+||+||||||||||||+|+++|
T Consensus         2 ~~~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG~lRnVPvggg~Rk~k~~~s   63 (63)
T PF02701_consen    2 PEQPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGGTLRNVPVGGGCRKNKRSSS   63 (63)
T ss_pred             CccCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcceecCCccCCCcccCCcCCC
Confidence            57889999999999999999999999999999999999999999999999999999999875

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

>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=94.25  E-value=0.033  Score=38.79  Aligned_cols=28  Identities=43%  Similarity=0.967  Sum_probs=22.7

Q ss_pred             CCCCCCCCCCCceeeeecCCCCCCCccccccccc
Q 043617           14 SPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRR   47 (291)
Q Consensus        14 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrR   47 (291)
                      +..||+|.+.  +...+.+    +.+|.|++|++
T Consensus        18 g~~CP~Cg~~--~~~~~~~----~~~~~C~~C~~   45 (46)
T PF12760_consen   18 GFVCPHCGST--KHYRLKT----RGRYRCKACRK   45 (46)
T ss_pred             CCCCCCCCCe--eeEEeCC----CCeEECCCCCC
Confidence            4779999998  6655655    78999999986

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

>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit

Probab=93.21  E-value=0.034  Score=47.60  Aligned_cols=34  Identities=32%  Similarity=0.868  Sum_probs=26.7

Q ss_pred             CCCCCCCCCCCceeeeecCC--CCCCCccccccccccc
Q 043617           14 SPNCPRCGSSNTKFCYYNNY--SLTQPRYFCKGCRRYW   49 (291)
Q Consensus        14 ~~~CPRC~S~nTKFcYyNNy--~~~QPR~fCk~CrRYW   49 (291)
                      ...||||.|.+|+..  +.+  +.++.-|+|++|+.=+
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            379999999999964  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.

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

Probab=92.60  E-value=0.09  Score=44.18  Aligned_cols=35  Identities=40%  Similarity=0.728  Sum_probs=28.0

Q ss_pred             CCCCCCCCCCceeeeecCCCCCCCccccccccccccc
Q 043617           15 PNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTK   51 (291)
Q Consensus        15 ~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~   51 (291)
                      ..||+|.+.+  +-=+.-+.....||.|++|++-|+.
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            6899999999  3335555556999999999999874

>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=90.19  E-value=0.21  Score=34.39  Aligned_cols=31  Identities=42%  Similarity=0.842  Sum_probs=21.6

Q ss_pred             CCCCCCCCCCCceeeeecCCCCC-CCcccccccc
Q 043617           14 SPNCPRCGSSNTKFCYYNNYSLT-QPRYFCKGCR   46 (291)
Q Consensus        14 ~~~CPRC~S~nTKFcYyNNy~~~-QPR~fCk~Cr   46 (291)
                      .+.||+|.+.+.  -|=|-.+.. ..||+|++|+
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            468999999872  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=89.06  E-value=0.46  Score=32.78  Aligned_cols=37  Identities=30%  Similarity=0.860  Sum_probs=27.8

Q ss_pred             CCCCCCCCCCceeeeecCCCCCCC---ccccccccccccc
Q 043617           15 PNCPRCGSSNTKFCYYNNYSLTQP---RYFCKGCRRYWTK   51 (291)
Q Consensus        15 ~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~   51 (291)
                      .+||+|...+.-|-..+-.+...|   -|.|.+|...|..
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            379999977777666655655555   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=85.98  E-value=0.63  Score=31.89  Aligned_cols=35  Identities=31%  Similarity=0.888  Sum_probs=24.0

Q ss_pred             CCCCCCCCCceeeeecCCCCCCCc---ccccccccccc
Q 043617           16 NCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWT   50 (291)
Q Consensus        16 ~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT   50 (291)
                      +||.|...+.-|=-.+..+...|-   |.|.+|..-|+
T Consensus         2 ~Cp~Cg~~~a~~~~~Q~rsaDE~~T~fy~C~~C~~~wr   39 (39)
T PF01096_consen    2 KCPKCGHNEAVFFQIQTRSADEPMTLFYVCCNCGHRWR   39 (39)
T ss_dssp             --SSS-SSEEEEEEESSSSSSSSSEEEEEESSSTEEEE
T ss_pred             CCcCCCCCeEEEEEeeccCCCCCCeEEEEeCCCCCeeC
Confidence            699999987766555665555453   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 ....

>PF13453 zf-TFIIB: Transcription factor zinc-finger

Probab=81.12  E-value=0.45  Score=32.37  Aligned_cols=37  Identities=27%  Similarity=0.651  Sum_probs=27.3

Q ss_pred             CCCCCCCCCceeeeecCCCCCCCcccccccccccccCCcccc
Q 043617           16 NCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRN   57 (291)
Q Consensus        16 ~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRn   57 (291)
                      +||+|...-...-+     ..-+-+.|.+|.-.|=..|.+..
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            69999986555444     23566889999999988776654

---

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	291
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 62.9 bits (152), Expect = 3e-11
 Identities = 30/217 (13%), Positives = 66/217 (30%), Gaps = 68/217 (31%)

Query: 55  LRNV-------PVGGGCRK--NRRGKSVRLSTDGVSSKALSYMGEINKVNGFLESTSTSS 105
           L NV            C+     R K V   TD +S+   +++   +           S 
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQV---TDFLSAATTTHISLDHHSMTLTPDEVKS- 305

Query: 106 LMQQQDGSHIDIALVFANFLNQPPEEKPAGSFELPEFPDIDPSMEFNSCMVSTNLESRVQ 165
                         +   +L+  P++ P       E    +P       +++ ++   + 
Sbjct: 306 --------------LLLKYLDCRPQDLP------REVLTTNP---RRLSIIAESIRDGLA 342

Query: 166 LPE--ENVNN---GLVRSLSFSDLSSAETQTHFRDNDQSYYSMF-DSVQKHGHHVQDGIQ 219
             +  ++VN      +   S + L  AE +  F        S+F  S           I 
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR-----LSVFPPSAH---------I- 387

Query: 220 SNQVLPPLPSEEILWLNS-----QMMMNQSLQAAAAA 251
              +L       ++W +       +++N+  + +   
Sbjct: 388 PTILL------SLIWFDVIKSDVMVVVNKLHKYSLVE 418

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	291
1qyp_A	57	RNA polymerase II; transcription, RPB9, Zn ribbon,	91.95
3h0g_I	113	DNA-directed RNA polymerases I, II, and III subuni	82.73
1tfi_A	50	Transcriptional elongation factor SII; transcripti	81.36

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

Probab=91.95  E-value=0.11  Score=36.42  Aligned_cols=49  Identities=24%  Similarity=0.614  Sum_probs=31.4

Q ss_pred             CCcccCCCCCCCCCCCCCCCCCCCceeeeecCCCCCCC---ccccccccccccc
Q 043617            1 MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQP---RYFCKGCRRYWTK   51 (291)
Q Consensus         1 ~~~~w~~k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~   51 (291)
                      +|..|+.-+.  ...+||+|...+..|--.+-.+...|   .|.|..|.--|+.
T Consensus         4 Ie~~~~~~~~--~~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~   55 (57)
T 1qyp_A            4 MEQDLKTLPT--TKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS   55 (57)
T ss_dssp             CCCCCSSSCE--EECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred             hhhhhhcCCc--eEeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence            3566744333  35789999984444433333344444   3999999999976

>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=82.73  E-value=1.3  Score=34.87  Aligned_cols=41  Identities=20%  Similarity=0.423  Sum_probs=26.0

Q ss_pred             CCCCCCCCCCCCCCceeeeecCCCCCCCc---cccccccccccc
Q 043617           11 VEISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWTK   51 (291)
Q Consensus        11 ~e~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~   51 (291)
                      +-...+||+|...+..|-..+-.+...|-   |.|..|.--|+.
T Consensus        69 p~~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~  112 (113)
T 3h0g_I           69 PRSDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE  112 (113)
T ss_dssp             CBCCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred             CCcccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence            33347999999876544333333332222   889999999974

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

Probab=81.36  E-value=1.4  Score=30.83  Aligned_cols=38  Identities=21%  Similarity=0.536  Sum_probs=28.1

Q ss_pred             CCCCCCCCCCCCceeeeecCCCCCCCc---ccccccccccc
Q 043617           13 ISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWT   50 (291)
Q Consensus        13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT   50 (291)
                      ....||+|...+..|=-.+..+...|-   |.|..|..-|.
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            346899999877776655555555553   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	291
d1twfi2	72	RBP9 subunit of RNA polymerase II {Baker's yeast (	89.73
d1tfia_	50	Transcriptional factor SII, C-terminal domain {Hum	87.89
d1qypa_	57	RBP9 subunit of RNA polymerase II {Archaeon Thermo	86.77

>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=89.73  E-value=0.17  Score=36.56  Aligned_cols=43  Identities=19%  Similarity=0.488  Sum_probs=32.1

Q ss_pred             CCCCCCCCCCCCCceeeeecCCCCCCCc---ccccccccccccCCc
Q 043617           12 EISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWTKGGS   54 (291)
Q Consensus        12 e~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~GGt   54 (291)
                      .....||+|...+.-|=+.+-.+..-|-   |.|..|.-.|+..++
T Consensus        21 ~t~~~CpkCg~~~a~~~q~QtRsaDE~mT~Fy~C~~C~h~Wr~~~~   66 (72)
T d1twfi2          21 RSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK   66 (72)
T ss_dssp             CCCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred             ccCCCCCCCCCCeEEEEEeecCccCCCceEEEEcCCCCCCcccccc
Confidence            3447999999887777666665554443   999999999998544

>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=87.89  E-value=0.19  Score=34.19  Aligned_cols=37  Identities=22%  Similarity=0.549  Sum_probs=30.5

Q ss_pred             CCCCCCCCCCCCceeeeecCCCCCCCc---cccccccccc
Q 043617           13 ISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYW   49 (291)
Q Consensus        13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYW   49 (291)
                      ...+||+|.+.+..|--.+..+...|-   +.|..|..-|
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            346999999998887777777777666   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=86.77  E-value=0.21  Score=34.55  Aligned_cols=44  Identities=23%  Similarity=0.601  Sum_probs=31.7

Q ss_pred             CCCCCCCCCCCCCCCCCceeeeecCCCCCCCc---cccccccccccc
Q 043617            8 KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWTK   51 (291)
Q Consensus         8 k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~   51 (291)
                      +..+-....||+|...+.-|--.+-.+..-|-   |.|..|+--|..
T Consensus         9 ~~~pt~~~~CpkC~~~~a~~~~~QtRsaDE~~T~fy~C~~Cg~~wre   55 (57)
T d1qypa_           9 KTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS   55 (57)
T ss_dssp             SSSCEEECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred             ccCCcccCCCCCCCCCceEEEEeecccccCCCeEEEEeCCCCCccee
Confidence            33344457999999888877666665555554   899999999863