Citrus Sinensis ID: 005482

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690----
MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISNESSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGYMREDENKSSRRNSSSDLRGRVRAESVTEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQQNSSQSCSGDTIVNSLSDGNPEKTAISSDGSGSAVHQNGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDSGSDSVGR
cccccccccccccccccccccccHHHHHHHccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccHHHHEEEEEEccccccccccccccccccccccccccccccEEEEEEccccccccccEEEccccccccccccccccccccEEEEEEEccccEEEEEEEEEcccccEEEcccHHHHHHccccccccEEEEEEcccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccEEEEEcccccccccEEEHHHHHHHHHcccccccEEEEEEEcccccccEEEEccEEEEEccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccHHHHHHHHHHHHccccccccccEEEEcccccEEEEccccHHHHHHcccEEEEEcccccccccc
ccEEcccccccccccccccccccHHHHHHHcccccEccccccEEEEcccccHHHHHcccccccccccccEEEEEEEEEEEccccccEEEEEEEEccccccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHHHHHcccccccccccHHHHHHHHccccEEEEEEEEccccccEEEcccccEEEcccEEEEccEEEEEEcccccEEEEEEEcccccccccccccccccccccccccccccccHHHHccccccccccccccccccccHHHHHHHHHHHHccccEEEEEccccccccEEEEHHHHHHHHHccccccEEEEEEEcccccccEEEEEEEEEEccccccccccccccEEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccEEEEcccccHHHHHHHHHHHHcccccccccEEEEEcccccEEEEccccHHHHHHHHEEEEEEcccccccccc
MITVMDSAkdamkknptgescldsQLWHACaggmvqmpqinskvfyfpqghlehakgnvelpnfnipsmipCRVTAIKFMADAETDEVYARIRLIALKsncfddfedvgfdgnggisnessekpasFAKTltqsdanngggfsvprycaetifprldysaeppvqtilakdvhgevwkfrhiyrgtprrhllttgwsnfvnqkklvagdSIVFLRAENGDLCVGIRrakkggigggsdysvgwnsgggncgfpfggysgymredenkssrrnsssdlrGRVRAESVTEAAALAangqpfevvyyprastpefVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTIssvqvadpirwpnspwrllqvawdepdllqnvkrvSPWLVELVsnipaihlspfsparkklrlpehsdfslinqlptpsftrnplvtsspfccisdnipagiqgarhaqyglsssdlhFNKLQsslfplgfqqlehttrparvssanfmsetgnsknisclltmgnptqsfkdnievktphiilfgqlilpqqnssqscsgdtivnslsdgnpektaissdgsgsavhqngplenssdegspwckdhkksdlglemghckvfmesedvgrtldlSVLGSYEELYGKLANMFGIESAEMFSNVLYrdaagsvkhtgdepfsEFLKTARRLTIltdsgsdsvgr
mitvmdsakdamkknptGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISNESSEKPASFAKTLtqsdanngggfSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGYMREdenkssrrnsssdlrgRVRAESVTEAaalaangqpfeVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQQNSSQSCSGDTIVNSLSDGNPEKTAISSDGSGSAVHQNGPlenssdegspwcKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSvkhtgdepfseflktarrltiltdsgsdsvgr
MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISNESSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVgirrakkggigggSDYSVGWnsgggncgfpfggysgYMREDENKSSRRNSSSDLRGRVRAESVTEaaalaaNGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQQNSSQSCSGDTIVNSLSDGNPEKTAISSDGSGSAVHQNGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDSGSDSVGR
********************CLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDG****************************GFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGY******************************ALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFS*************FSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQ************************ISCLLTMGNPTQSFKDNIEVKTPHIILFGQLIL*************************************************************LGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHT****FSEFLKTARRLTI***********
************************QLWHACAGGMVQMPQINSKVFYFPQGHLEH****************PCRVTAIK**ADAETDEVYARIRLIALKSNC***********************ASFAKTLTQSDANNGGGFSVPRYCAETIFPRLD*****PVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKK******************NCGFPFG*******************************TEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIP**************************************************IPAGIQGARHAQYGLSSSD**************************************SKNIS*************************************************SDGNPEKTAI**DGSGSAVHQNGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDS*******
MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISNESSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGYMRE********************ESVTEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQ********GDTIVNSLSDGNP******************************CKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTD********
******************ESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKS***********************KPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGYMRED****************VRAESVTEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSP*****************Q*PTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGF**********RVSS**********************************PHIILFGQLILPQ**************************************************************EMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDS*******
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MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISNESSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPFGGYSGYMREDENKSSRRNSSSDLRGRVRAESVTEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQQNSSQSCSGDTIVNSLSDGNPEKTAISSDGSGSAVHQNGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDSGSDSVGR
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query694 2.2.26 [Sep-21-2011]
Q653H7700 Auxin response factor 18 yes no 0.981 0.972 0.618 0.0
Q93YR9670 Auxin response factor 16 yes no 0.948 0.982 0.643 0.0
Q9AV47698 Auxin response factor 22 no no 0.935 0.929 0.602 0.0
Q6K223681 Auxin response factor 8 O no no 0.945 0.963 0.573 0.0
Q9SKN5693 Auxin response factor 10 no no 0.896 0.897 0.565 0.0
Q7XKK6699 Auxin response factor 10 no no 0.949 0.942 0.494 0.0
Q01I35699 Auxin response factor 10 N/A no 0.949 0.942 0.494 0.0
Q84WU6585 Auxin response factor 17 no no 0.720 0.854 0.412 1e-100
Q8L7G0665 Auxin response factor 1 O no no 0.838 0.875 0.322 5e-75
Q6YVY0678 Auxin response factor 7 O no no 0.840 0.859 0.334 4e-74
>sp|Q653H7|ARFR_ORYSJ Auxin response factor 18 OS=Oryza sativa subsp. japonica GN=ARF18 PE=2 SV=1 Back     alignment and function desciption
 Score =  868 bits (2244), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 441/713 (61%), Positives = 529/713 (74%), Gaps = 32/713 (4%)

Query: 1   MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGN-- 58
           MIT +DSA  A ++    + CLD QLWHACAGGMVQMP ++SKV+YFPQGH EHA+G+  
Sbjct: 1   MITFVDSA--AKERERESDKCLDPQLWHACAGGMVQMPPVSSKVYYFPQGHAEHAQGHGP 58

Query: 59  VELPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISN 118
           VE P   +P+++ CRV  ++FMAD +TDEV+A+IRL+ +++N      + G+ G+     
Sbjct: 59  VEFPGGRVPALVLCRVAGVRFMADPDTDEVFAKIRLVPVRAN------EQGYAGDADDGI 112

Query: 119 E-------SSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKD 171
                     EKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSA+PPVQT+LAKD
Sbjct: 113 GAAAAAAAQEEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSADPPVQTVLAKD 172

Query: 172 VHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKG 231
           VHG VWKFRHIYRGTPRRHLLTTGWS FVNQKKLVAGDSIVF+R ENGDLCVGIRRAKKG
Sbjct: 173 VHGVVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFMRTENGDLCVGIRRAKKG 232

Query: 232 GIGG-----GSDYSVGWNSGGGNCGFPFGGYSGYMREDENKSSRRNSS-SDLRGRVRAES 285
           G+GG              + GGN    +GG+S ++R D++ +    ++   +R RVR E 
Sbjct: 233 GVGGPEFLPPPPPPPPTPAAGGN----YGGFSMFLRGDDDGNKMAAAARGKVRARVRPEE 288

Query: 286 VTEAAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRI 345
           V EAA LA +GQPFEVVYYPRASTPEF VKA AVRAAM+ QW +GMRFKMAFETEDSSRI
Sbjct: 289 VVEAANLAVSGQPFEVVYYPRASTPEFCVKAGAVRAAMRTQWFAGMRFKMAFETEDSSRI 348

Query: 346 SWFMGTISSVQVADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSP 405
           SWFMGT+S+VQVADPIRWPNSPWRLLQV+WDEPDLLQNVKRVSPWLVELVSN+PAIHL+P
Sbjct: 349 SWFMGTVSAVQVADPIRWPNSPWRLLQVSWDEPDLLQNVKRVSPWLVELVSNMPAIHLAP 408

Query: 406 FSPARKKLRLPEHSDFSLINQLPTPSFTRNPLVTS-SPFCCISDNIPAGIQGARHAQYGL 464
           FSP RKKL +P + +  +  Q PTP F  NPL     P C   D  PAGIQGARHAQ+G+
Sbjct: 409 FSPPRKKLCVPLYPELPIDGQFPTPMFHGNPLARGVGPMCYFPDGTPAGIQGARHAQFGI 468

Query: 465 SSSDLHFNKLQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFK 524
           S SDLH NKLQSSL P G  QL+H  +P R+++   +       +ISCLLT+G+P  + K
Sbjct: 469 SLSDLHLNKLQSSLSPHGLHQLDHGMQP-RIAAGLIIGHPAARDDISCLLTIGSPQNNKK 527

Query: 525 DNIEVKTPHIILFGQLILPQQNSSQSCSGDTIV-NSLSDGNPEKTA--ISSDGSGSAVHQ 581
            + +     ++LFG+ IL +Q  S   +    V  S SDGN E T    +SD S    +Q
Sbjct: 528 SDGKKAPAQLMLFGKPILTEQQISLGDAASVDVKKSSSDGNAENTVNKSNSDVSSPRSNQ 587

Query: 582 NGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLAN 641
           NG  +N S  G P C+D+K  D+GLE GHCKVFM+SEDVGRTLDLSV+GSYEELY +LA+
Sbjct: 588 NGTTDNLSCGGVPLCQDNKVLDVGLETGHCKVFMQSEDVGRTLDLSVVGSYEELYRRLAD 647

Query: 642 MFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDSGSDSVGR 694
           MFGIE AE+ S+V YRDAAG++KHTGDEPFSEF KTARRL ILTD+  D++ R
Sbjct: 648 MFGIEKAELMSHVFYRDAAGALKHTGDEPFSEFTKTARRLNILTDTSGDNLAR 700
Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q93YR9|ARFP_ARATH Auxin response factor 16 OS=Arabidopsis thaliana GN=ARF16 PE=2 SV=1 Back     alignment and function description
>sp|Q9AV47|ARFV_ORYSJ Auxin response factor 22 OS=Oryza sativa subsp. japonica GN=ARF22 PE=2 SV=1 Back     alignment and function description
>sp|Q6K223|ARFH_ORYSJ Auxin response factor 8 OS=Oryza sativa subsp. japonica GN=ARF8 PE=2 SV=1 Back     alignment and function description
>sp|Q9SKN5|ARFJ_ARATH Auxin response factor 10 OS=Arabidopsis thaliana GN=ARF10 PE=2 SV=1 Back     alignment and function description
>sp|Q7XKK6|ARFJ_ORYSJ Auxin response factor 10 OS=Oryza sativa subsp. japonica GN=ARF10 PE=2 SV=3 Back     alignment and function description
>sp|Q01I35|ARFJ_ORYSI Auxin response factor 10 OS=Oryza sativa subsp. indica GN=ARF10 PE=2 SV=2 Back     alignment and function description
>sp|Q84WU6|ARFQ_ARATH Auxin response factor 17 OS=Arabidopsis thaliana GN=ARF17 PE=2 SV=1 Back     alignment and function description
>sp|Q8L7G0|ARFA_ARATH Auxin response factor 1 OS=Arabidopsis thaliana GN=ARF1 PE=1 SV=2 Back     alignment and function description
>sp|Q6YVY0|ARFG_ORYSJ Auxin response factor 7 OS=Oryza sativa subsp. japonica GN=ARF7 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query694
224097892671 predicted protein [Populus trichocarpa] 0.961 0.994 0.752 0.0
224113039669 predicted protein [Populus trichocarpa] 0.951 0.986 0.753 0.0
225449038683 PREDICTED: auxin response factor 18 [Vit 0.975 0.991 0.722 0.0
147834267680 hypothetical protein VITISV_024151 [Viti 0.933 0.952 0.707 0.0
255556996702 Auxin response factor, putative [Ricinus 0.985 0.974 0.671 0.0
356537563700 PREDICTED: auxin response factor 18-like 0.982 0.974 0.654 0.0
225435334711 PREDICTED: auxin response factor 18-like 0.956 0.933 0.660 0.0
206572097702 putative auxin response factor ARF16 [Ma 0.984 0.972 0.668 0.0
449451004698 PREDICTED: auxin response factor 18-like 0.985 0.979 0.651 0.0
225439992701 PREDICTED: auxin response factor 18-like 0.971 0.961 0.659 0.0
>gi|224097892|ref|XP_002311089.1| predicted protein [Populus trichocarpa] gi|222850909|gb|EEE88456.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score = 1060 bits (2741), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 512/680 (75%), Positives = 576/680 (84%), Gaps = 13/680 (1%)

Query: 17  TGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVELPNFNIPSMIPCRVTA 76
             E CLDSQLWHACAG MVQMP +NSKVFYFPQGH EHA+G+V+  +F IP++IPC+V+A
Sbjct: 3   VAEKCLDSQLWHACAGSMVQMPAVNSKVFYFPQGHAEHAQGSVDFGHFQIPALIPCKVSA 62

Query: 77  IKFMADAETDEVYARIRLIALKSNCFDDFEDVGFDGNGGISN--ESSEKPASFAKTLTQS 134
           IK+MA+ ETDEVYA+IRL    ++     +  G D +  + N  ES EKPASFAKTLTQS
Sbjct: 63  IKYMAEPETDEVYAKIRLTPSSNSDLMFGDGCGEDSDDRLPNGIESQEKPASFAKTLTQS 122

Query: 135 DANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTT 194
           DANNGGGFSVPRYCAETIFPRLDY+AEPPVQTILAKDVHGE WKFRHIYRGTPRRHLLTT
Sbjct: 123 DANNGGGFSVPRYCAETIFPRLDYTAEPPVQTILAKDVHGETWKFRHIYRGTPRRHLLTT 182

Query: 195 GWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKGGIGGGSDYSVGWNSGGGNCGFPF 254
           GWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAK+G IGGG++ S GWNS        F
Sbjct: 183 GWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKRG-IGGGNECSSGWNS--------F 233

Query: 255 GGYSGYMREDENKSSRRNSSSDLRGRVRAESVTEAAALAANGQPFEVVYYPRASTPEFVV 314
           GGYSG++REDE+K +RRN + D++G+V+ ESV EAA+LAANGQPFEVVYYPRASTPEF V
Sbjct: 234 GGYSGFLREDESKLTRRNGNGDMKGKVKPESVIEAASLAANGQPFEVVYYPRASTPEFCV 293

Query: 315 KASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPWRLLQVA 374
           +ASAVR AM IQWC GMRFKMAFETEDSSRISWFMGTISSVQ ADPIRWPNSPWRLLQVA
Sbjct: 294 RASAVRTAMHIQWCPGMRFKMAFETEDSSRISWFMGTISSVQFADPIRWPNSPWRLLQVA 353

Query: 375 WDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPEHSDFSLINQLPTPSFTR 434
           WDEPDLLQNVKRVSPWL ELVSN+PAIHLSPFSP RKKLRLP+  DF L+ Q+P PSFT 
Sbjct: 354 WDEPDLLQNVKRVSPWLAELVSNMPAIHLSPFSPPRKKLRLPQPPDFPLLGQIPMPSFTG 413

Query: 435 NPLVTSSPFCCISDNIPAGIQGARHAQYGLSSSDLHFNKLQSSLFPLGFQQLEHTTRPAR 494
            PL ++SP CC+SDNIPAGIQGARHAQ+ LSSSDLHFNKLQS LFP+ FQ+ +H   P+R
Sbjct: 414 IPLRSNSPLCCVSDNIPAGIQGARHAQFELSSSDLHFNKLQSGLFPVDFQRRDHAASPSR 473

Query: 495 VSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPHIILFGQLILPQQNSSQSCSGD 554
           +SS NFM  T  S+NISCLLTMGN +QS K++ E KTPH +LFGQLI+  Q SSQSCSGD
Sbjct: 474 ISSGNFMGNTKKSENISCLLTMGNSSQSLKESSETKTPHFVLFGQLIVTDQQSSQSCSGD 533

Query: 555 TIVNSLSDGNPEKTAISSDGSGSAVHQNGPLENSSDEGSPWCKDHKKSDLGLEMGHCKVF 614
           T  NS SDGN  K   SSDGSGSA+ QNGP+ENSSDE S W KDH+K+DLGLE  HCKVF
Sbjct: 534 TNANSSSDGNLGKA--SSDGSGSALQQNGPMENSSDERSTWYKDHQKTDLGLETDHCKVF 591

Query: 615 MESEDVGRTLDLSVLGSYEELYGKLANMFGIESAEMFSNVLYRDAAGSVKHTGDEPFSEF 674
           +ESED+GRTLDLSVLGSYEEL+ KLA+MFGIES+EM SNVLYRDAAG+ KH GDEPFSEF
Sbjct: 592 LESEDIGRTLDLSVLGSYEELHRKLASMFGIESSEMLSNVLYRDAAGATKHAGDEPFSEF 651

Query: 675 LKTARRLTILTDSGSDSVGR 694
           LKTARRLTIL+ +  D+ GR
Sbjct: 652 LKTARRLTILSYASRDNFGR 671

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224113039|ref|XP_002316370.1| predicted protein [Populus trichocarpa] gi|222865410|gb|EEF02541.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225449038|ref|XP_002273590.1| PREDICTED: auxin response factor 18 [Vitis vinifera] Back     alignment and taxonomy information
>gi|147834267|emb|CAN63853.1| hypothetical protein VITISV_024151 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255556996|ref|XP_002519531.1| Auxin response factor, putative [Ricinus communis] gi|223541394|gb|EEF42945.1| Auxin response factor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356537563|ref|XP_003537296.1| PREDICTED: auxin response factor 18-like [Glycine max] Back     alignment and taxonomy information
>gi|225435334|ref|XP_002282437.1| PREDICTED: auxin response factor 18-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|206572097|gb|ACI13681.1| putative auxin response factor ARF16 [Malus x domestica] Back     alignment and taxonomy information
>gi|449451004|ref|XP_004143252.1| PREDICTED: auxin response factor 18-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225439992|ref|XP_002281486.1| PREDICTED: auxin response factor 18-like [Vitis vinifera] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query694
TAIR|locus:2126460670 ARF16 "auxin response factor 1 0.946 0.980 0.621 5.5e-212
TAIR|locus:2057517693 ARF10 "auxin response factor 1 0.913 0.914 0.551 1e-178
TAIR|locus:2029436585 ARF17 "auxin response factor 1 0.793 0.941 0.381 1.6e-95
TAIR|locus:2152642 811 ARF8 "auxin response factor 8" 0.285 0.244 0.485 8.8e-80
TAIR|locus:2202205 1086 ARF19 "auxin response factor 1 0.280 0.179 0.485 3.2e-77
TAIR|locus:2204237 935 ARF6 "auxin response factor 6" 0.283 0.210 0.481 8.7e-76
TAIR|locus:2035454 902 MP "MONOPTEROS" [Arabidopsis t 0.311 0.239 0.442 1.1e-75
TAIR|locus:2175098788 ARF4 "auxin response factor 4" 0.309 0.272 0.446 1.2e-75
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.282 0.315 0.473 8.9e-73
TAIR|locus:2174013 859 ARF2 "auxin response factor 2" 0.288 0.232 0.450 4.5e-72
TAIR|locus:2126460 ARF16 "auxin response factor 16" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2049 (726.3 bits), Expect = 5.5e-212, P = 5.5e-212
 Identities = 437/703 (62%), Positives = 505/703 (71%)

Query:     1 MITVMDSAKDAMKKNPTGESCLDSQLWHACAGGMVQMPQINSKVFYFPQGHLEHAKGNVE 60
             MI VM+  K   +K       LD QLWHACAGGMV+MP +NSKVFYFPQGH E+A   V+
Sbjct:     1 MINVMNPMKGGTEKG------LDPQLWHACAGGMVRMPPMNSKVFYFPQGHAENAYDCVD 54

Query:    61 LPNFNIPSMIPCRVTAIKFMADAETDEVYARIRLIALKSNCFDDFE-DVGFDGNGGISNE 119
               N  IP M+ CRV AIK+MADAE+DEV+A++RLI LK + + D E   G D NG  SN 
Sbjct:    55 FGNLPIPPMVLCRVLAIKYMADAESDEVFAKLRLIPLKDDEYVDHEYGDGEDSNGFESN- 113

Query:   120 SSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKF 179
              SEK  SFAKTLTQSDANNGGGFSVPRYCAETIFPRLDY+AEPPVQTILAKDVHG+VWKF
Sbjct:   114 -SEKTPSFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYNAEPPVQTILAKDVHGDVWKF 172

Query:   180 RHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVXXXXXXXXXXXXXSDY 239
             RHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVF+RAENGDLCV              +Y
Sbjct:   173 RHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFMRAENGDLCVGIRRAKRGGIGNGPEY 232

Query:   240 SVGWXXXXXXXXXXXXXXXXYMREDENKSSRRNSSS--DLRGRVRAESVTEXXXXXXNGQ 297
             S GW                 +REDE+ S RR++ S  D +G+V AESV E      +G+
Sbjct:   233 SAGWNPIGGSCGYSSL-----LREDESNSLRRSNCSLADRKGKVTAESVIEAATLAISGR 287

Query:   298 PFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQV 357
             PFEVVYYPRAST EF VKA   RAAM+I WCSGMRFKMAFETEDSSRISWFMGT+S+V V
Sbjct:   288 PFEVVYYPRASTSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWFMGTVSAVNV 347

Query:   358 ADPIRWPNSPWRLLQVAWDEPDLLQNVKRVSPWLVELVSNIPAIHLSPFSPARKKLRLPE 417
             +DPIRWPNSPWRLLQVAWDEPDLLQNVKRV+PWLVELVSN+  I L+ FSP RKK+RLP+
Sbjct:   348 SDPIRWPNSPWRLLQVAWDEPDLLQNVKRVNPWLVELVSNVHPIPLTSFSPPRKKMRLPQ 407

Query:   418 HSDFS-LINQLPTPSFTRNPLVTSSPFCCISDNIPAGIQGARH---AQYGLSSSDLHFNK 473
             H D++ LIN +P PSF  NPL+ SSP   + DN+P G+QGARH     YGLSSSDLH   
Sbjct:   408 HPDYNNLINSIPVPSFPSNPLIRSSPLSSVLDNVPVGLQGARHNAHQYYGLSSSDLHHYY 467

Query:   474 LQSSLFPLGFQQLEHTTRPARVSSANFMSETGNSKNISCLLTMGNPTQSFKDNIEVKTPH 533
             L     P     L+ +  P+ +   N   +T N K   C LTMG  T    D  + K  H
Sbjct:   468 LNRPPPPPPPSSLQLS--PS-LGLRNI--DTKNEKGF-CFLTMG--TTPCNDT-KSKKSH 518

Query:   534 IILFGQLILPQQNSSQSCSGDTIVNSLSDGNPEKTAISSDGSGSAVHQNGPLE---NSSD 590
             I+LFG+LILP++  S+  S DT        N EKT ISS GS    +QNG      +SSD
Sbjct:   519 IVLFGKLILPEEQLSEKGSTDT-------ANIEKTQISSGGS----NQNGVAGREFSSSD 567

Query:   591 EGSPWCKD-HKKSDLGLEMGHCKVFMESEDVGRTLDLSVLGSYEELYGKLANMFGIESAE 649
             EGSP  K  H  S  GLE GHCKVFMES+DVGRTLDLSVLGSYEEL  KL++MFGI+ +E
Sbjct:   568 EGSPCSKKVHDAS--GLETGHCKVFMESDDVGRTLDLSVLGSYEELSRKLSDMFGIKKSE 625

Query:   650 MFSNVLYRDAAGSVKHTGDEPFSEFLKTARRLTILTDSGSDSV 692
             M S+VLYRDA+G++K+ G+EPFSEFLKTARRLTILT+ GS+SV
Sbjct:   626 MLSSVLYRDASGAIKYAGNEPFSEFLKTARRLTILTEQGSESV 668
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0009725 "response to hormone stimulus" evidence=IEA
GO:0046983 "protein dimerization activity" evidence=IEA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0035198 "miRNA binding" evidence=ISS
GO:0007389 "pattern specification process" evidence=IDA
GO:0009733 "response to auxin stimulus" evidence=IEP
GO:0048829 "root cap development" evidence=IGI;IMP
GO:0051301 "cell division" evidence=IGI
TAIR|locus:2057517 ARF10 "auxin response factor 10" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2029436 ARF17 "auxin response factor 17" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2152642 ARF8 "auxin response factor 8" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2202205 ARF19 "auxin response factor 19" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2204237 ARF6 "auxin response factor 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2035454 MP "MONOPTEROS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2175098 ARF4 "auxin response factor 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2039124 ARF11 "auxin response factor 11" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2174013 ARF2 "auxin response factor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q93YR9ARFP_ARATHNo assigned EC number0.64380.94810.9820yesno
Q653H7ARFR_ORYSJNo assigned EC number0.61850.98120.9728yesno

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:
fgenesh4_pg.C_LG_VIII000301
hypothetical protein (671 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query694
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 2e-43
pfam0236297 pfam02362, B3, B3 DNA binding domain 3e-27
smart0101996 smart01019, B3, B3 DNA binding domain 8e-24
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 7e-21
pfam02309188 pfam02309, AUX_IAA, AUX/IAA family 3e-08
cd10015109 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o 8e-06
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  150 bits (382), Expect = 2e-43
 Identities = 49/84 (58%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 289 AAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWF 348
           AA  A+ G PF V Y PRAST EFVV  +    AM   +  GMRFKM FETEDSS   + 
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNNPFSVGMRFKMRFETEDSSERRF- 59

Query: 349 MGTISSVQVADPIRWPNSPWRLLQ 372
            GTIS V   DPIRWPNS WR LQ
Sbjct: 60  SGTISGVSDLDPIRWPNSKWRSLQ 83

A conserved region of auxin-responsive transcription factors. Length = 83
>gnl|CDD|216995 pfam02362, B3, B3 DNA binding domain Back     alignment and domain information
>gnl|CDD|214977 smart01019, B3, B3 DNA binding domain Back     alignment and domain information
>gnl|CDD|197383 cd10017, B3_DNA, Plant-specific B3-DNA binding domain Back     alignment and domain information
>gnl|CDD|216968 pfam02309, AUX_IAA, AUX/IAA family Back     alignment and domain information
>gnl|CDD|197381 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains of BfiI, EcoRII and plant B3 proteins Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 694
PF0650783 Auxin_resp: Auxin response factor; InterPro: IPR01 100.0
PF02309215 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A 99.97
PF02362100 B3: B3 DNA binding domain; InterPro: IPR003340 Two 99.71
KOG06441113 consensus Uncharacterized conserved protein, conta 99.59
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 98.07
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.44
PF0056484 PB1: PB1 domain; InterPro: IPR000270 The Phox and 96.25
cd0640782 PB1_NLP A PB1 domain is present in NIN like protei 95.62
cd0599281 PB1 The PB1 domain is a modular domain mediating s 95.54
cd0639891 PB1_Joka2 The PB1 domain is present in the Nicotia 95.49
cd0639681 PB1_NBR1 The PB1 domain is an essential part of NB 95.48
smart0066681 PB1 PB1 domain. Phox and Bem1p domain, present in 95.07
cd0640380 PB1_Par6 The PB1 domain is an essential part of Pa 94.23
cd0640986 PB1_MUG70 The MUG70 protein is a product of the me 92.8
cd0640181 PB1_TFG The PB1 domain found in TFG protein, an on 92.15
cd0640483 PB1_aPKC PB1 domain is an essential modular domain 91.29
cd0640287 PB1_p62 The PB1 domain is an essential part of p62 88.08
cd0640886 PB1_NoxR The PB1 domain is present in the Epichloe 87.19
cd0639782 PB1_UP1 Uncharacterized protein 1. The PB1 domain 86.46
>PF06507 Auxin_resp: Auxin response factor; InterPro: IPR010525 This pattern represents a conserved region of auxin-responsive transcription factors Back     alignment and domain information 
Probab=100.00  E-value=2e-35  Score=257.62  Aligned_cols=83  Identities=61%  Similarity=0.989  Sum_probs=80.6

Q ss_pred             HHHHHHcCCcEEEEEecCCCCCceEEehHHHHHHHhcCcccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCc
Q 005482          289 AAALAANGQPFEVVYYPRASTPEFVVKASAVRAAMQIQWCSGMRFKMAFETEDSSRISWFMGTISSVQVADPIRWPNSPW  368 (694)
Q Consensus       289 Aa~~aa~g~~F~V~YyPR~~~~eFvV~~~~y~~A~~~~w~~GmRFkM~fE~eDss~~~w~~GTI~~v~~~dp~~wp~S~W  368 (694)
                      ||++|++|++|+|+||||++++||||++++|++||+++|++||||||+||+||+++++ |+|||+||++.||++||+|+|
T Consensus         1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~-~~GtI~~v~~~dp~~w~~S~W   79 (83)
T PF06507_consen    1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERR-WQGTIVGVSDLDPIRWPGSKW   79 (83)
T ss_pred             ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccce-eeeEEeEeeccCCCCCCCCCc
Confidence            6899999999999999999999999999999999999999999999999999999965 599999999999999999999


Q ss_pred             ccee
Q 005482          369 RLLQ  372 (694)
Q Consensus       369 R~L~  372 (694)
                      ||||
T Consensus        80 R~Lq   83 (83)
T PF06507_consen   80 RMLQ   83 (83)
T ss_pred             ccCc
Confidence            9997

The plant hormone auxin (indole-3-acetic acid) can regulate the gene expression of several families, including Aux/IAA, GH3 and SAUR families. Two related families of proteins, Aux/IAA proteins (IPR003311 from INTERPRO) and the auxin response factors (ARF), are key regulators of auxin-modulated gene expression []. There are multiple ARF proteins, some of which activate, while others repress transcription. ARF proteins bind to auxin-responsive cis-acting promoter elements (AuxREs) using an N-terminal DNA-binding domain. It is thought that Aux/IAA proteins activate transcription by modifying ARF activity through the C-terminal protein-protein interaction domains (IPR011525 from INTERPRO) found in both Aux/IAA and ARF proteins. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0009725 response to hormone stimulus, 0005634 nucleus
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression [] Back     alignment and domain information
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species Back     alignment and domain information
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only] Back     alignment and domain information
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV Back     alignment and domain information
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function Back     alignment and domain information
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins Back     alignment and domain information
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium) Back     alignment and domain information
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity Back     alignment and domain information
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein Back     alignment and domain information
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62 Back     alignment and domain information
>smart00666 PB1 PB1 domain Back     alignment and domain information
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells Back     alignment and domain information
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain Back     alignment and domain information
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK Back     alignment and domain information
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells Back     alignment and domain information
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover Back     alignment and domain information
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA Back     alignment and domain information
>cd06397 PB1_UP1 Uncharacterized protein 1 Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query694
1wid_A130 Solution Structure Of The B3 Dna-Binding Domain Of 9e-11
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130 Back     alignment and structure 
Iteration: 1

 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 56/98 (57%), Gaps = 4/98 (4%)
Query: 125 ASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILA--KDVHGEVWKFRHI 182
           A F K +T SD        +P++ AE  FP    S+   V+ +L   +DV+G+VW+FR+ 
Sbjct: 12  ALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLP--SSNVSVKGVLLNFEDVNGKVWRFRYS 69
Query: 183 YRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGD 220
           Y  + + ++LT GWS FV +K L AGD + F R+   D
Sbjct: 70  YWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQD 107

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query694
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 8e-39
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 130 Back     alignment and structure
 Score =  139 bits (350), Expect = 8e-39
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)

Query: 112 GNGGISNESSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKD 171
           G+ G S       A F K +T SD        +P++ AE  FP    +       +  +D
Sbjct: 1   GSSGSSGR--SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFED 58

Query: 172 VHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGDLCVGIRRAKKG 231
           V+G+VW+FR+ Y  + + ++LT GWS FV +K L AGD + F R+   D  + I    + 
Sbjct: 59  VNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRS 118

Query: 232 G 232
           G
Sbjct: 119 G 119
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 694
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 7e-35
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 2e-23
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 5e-13
>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 117 Back     information, alignment and structure

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  126 bits (317), Expect = 7e-35
 Identities = 36/110 (32%), Positives = 56/110 (50%), Gaps = 2/110 (1%)

Query: 122 EKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRH 181
              A F K +T SD        +P++ AE  FP    +       +  +DV+G+VW+FR+
Sbjct: 2   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRY 61

Query: 182 IYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLRAENGD--LCVGIRRAK 229
            Y  + + ++LT GWS FV +K L AGD + F R+   D  L +G +   
Sbjct: 62  SYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRS 111
>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 175 Back     information, alignment and structure
>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 102 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query694
d1wida_117 DNA-binding protein RAV1 {Thale cress (Arabidopsis 99.95
d1na6a1175 Restriction endonuclease EcoRII, N-terminal domain 99.86
d1yela1102 At1g16640 {Thale cress (Arabidopsis thaliana) [Tax 99.52
d2bkfa185 Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum 95.87
d1ip9a_85 Bud emergence mediator Bemp1 {Baker's yeast (Sacch 94.59
>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.95  E-value=1.2e-27  Score=186.28  Aligned_cols=107  Identities=33%  Similarity=0.552  Sum_probs=101.1

Q ss_pred             CEEEEEECCCCCCCCCCCEEECCCCHHHCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEEECCCCCEEECCCCHHHHCCC
Q ss_conf             60799955524489999368723422001999998999983389998669984999999929998403324701142026
Q 005482          124 PASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQK  203 (694)
Q Consensus       124 ~~~F~K~LT~SDv~~~grlsVPk~~Ae~~FP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~yrg~~rr~lLTtGWs~FV~~K  203 (694)
                      .++|.|+||+|||+++|||+||+.+|+.|||+++.....+++.|.+.|.+|++|+|+|++|++.++|+|++||..||+++
T Consensus         4 ~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~~   83 (117)
T d1wida_           4 EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEK   83 (117)
T ss_dssp             EEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHHT
T ss_pred             CEEEEEEECCHHCCCCCEEEECHHHHHHHCCCCCCCCCCCCEEEEEEECCCCEEEEEEEEECCCCCEEEECCHHHHHHHC
T ss_conf             64799991112008988899778999973895434567770799999599999999999988998347745779988874


Q ss_pred             CCCCCCEEEEEECC--CCCEEEEEEECCC
Q ss_conf             88679899999715--9958999998136
Q 005482          204 KLVAGDSIVFLRAE--NGDLCVGIRRAKK  230 (694)
Q Consensus       204 ~L~aGD~VvF~R~~--nG~l~VGIRRa~~  230 (694)
                      +|++||+|+|++.+  +++++|++||+..
T Consensus        84 ~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          84 NLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             TCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             CCCCCCEEEEEEEECCCCEEEEEEEECCC
T ss_conf             99979999999981899889999999999
>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2bkfa1 d.15.2.2 (A:1-85) Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure