Citrus Sinensis ID: 023395

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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---
Protein Sequence
MQGGIGLLGVGGGGGGGCNGNESGVSKVVESDDDELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPNFVN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccEEEEEEcccEEEEEEcccccccHHHHHHHHHHHHcccccccccccccHHHHHHHHHHccccccEEEEEEcccccEEEccccccccccEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccEEEEcccccccccHccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccEEEEEHHHHccHHHHHHHHHHHHccccccccccccccccccHHHHHHcccccEEEEEEcccccEEEEccccHHHHHHHHHHEEEcccHHcccHHHHcc
Coil and Loop (DISEMBL)
mqggigllgvgggggggcngnesgvskvvesdddelelglglslggvggggkgkvvsswgecgriltakdfpsagrrpsnassssppvavsgtkraansvpregessppsasqvvgwppigaYRMNSLvnqakapiseeekvadekdkskdaskkkicngnktnnifsekAHLGFVKVnmdgvpigrkvdlNAHASYESLAQTLEEMFFastpainsiggeKDLATKAFKLLDGLSEFVLtyedkegdwmlvgdvpWRYATIILHLGVLNMVycevqppnfvn
Flexible Loop (DISEMBL)
MQGGIGLLGVGGGGGGGCNGNESGVSKVVESDDDELELGLGlslggvggggKGKVVSSWGECGRILTAKdfpsagrrpsnassssppvavsgTKRAANsvpregessppsasqvvGWPPIGAYRMNSLVNQAkapiseeekvadekdkskdaskkkicngnktnnifseKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPNFVN
Low Complexity Region (SEG)
MQggigllgvgggggggcngnesgvskvvesdddelelglglslggvggggkgkvvssWGECGRILTAKDFpsagrrpsnassssppvavsgTKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIseeekvadekdkskdaskkkICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPNFVN
Disordered region (IsUnstruct)
*************************************LGLGLSLGGVGGGGKGKVVSSWGECGRILTA**********************************************VGWPPIGAYRM*************************************TNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQ******
Disordered Region (DISOPRED)
************************************ELGLGL**********************************************************************************************************************************LGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPA******************DGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMV***********
Disordered Region (DISEMBL)
MQGGIGLLGVGGGGGGGCNGNESGVSKVVESDDDELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDFP****************************************QVVGWPPIGAYRMNSLVNQAKAP*******************KKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPNFVN
Disordered Region (DISPRO)
************GGGGGC**NESGVSKVVESDDDELELGLGLS****************************************************************PPSASQVVGWPPIGAYRMNSLVNQ**************************************KAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPN***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQGGIGLLGVGGGGGGGCNGNESGVSKVVESDDDELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIILHLGVLNMVYCEVQPPNFVN
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	283	2.2.26 [Sep-21-2011]
Q38831	247	Auxin-responsive protein	yes	no	0.657	0.753	0.515	4e-50
Q38830	239	Auxin-responsive protein	no	no	0.590	0.698	0.538	2e-46
Q38829	246	Auxin-responsive protein	no	no	0.667	0.768	0.433	1e-35
A2XB18	281	Auxin-responsive protein	N/A	no	0.713	0.718	0.455	2e-34
Q0DWF2	281	Auxin-responsive protein	yes	no	0.713	0.718	0.455	2e-34
Q38828	261	Auxin-responsive protein	no	no	0.498	0.540	0.459	1e-27
Q5W670	327	Auxin-responsive protein	no	no	0.646	0.559	0.361	8e-24
Q8LAL2	269	Auxin-responsive protein	no	no	0.579	0.609	0.373	2e-23
Q38826	321	Auxin-responsive protein	no	no	0.448	0.395	0.425	4e-22
Q38832	228	Auxin-responsive protein	no	no	0.473	0.587	0.386	4e-21

>sp|Q38831|IAA13_ARATH Auxin-responsive protein IAA13 OS=Arabidopsis thaliana GN=IAA13 PE=1 SV=2

 Score =  198 bits (504), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 117/227 (51%), Positives = 140/227 (61%), Gaps = 41/227 (18%)

Query: 64  RILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPIGAY 123
           R+LTAKDFPS G                 +KRAA+S    G S P S+SQVVGWPPIG++
Sbjct: 44  RLLTAKDFPSVG-----------------SKRAADSASHAGSSPPRSSSQVVGWPPIGSH 86

Query: 124 RMNSLVN-QAKAPISEEEKVADEK---DKSKDASKKKICNGNKTNNIFSEKAHLGFVKVN 179
           RMNSLVN QA     EEE+   +K   D+ KD +KK   NG         K  +GF+KVN
Sbjct: 87  RMNSLVNNQATKSAREEEEAGKKKVKDDEPKDVTKK--VNG---------KVQVGFIKVN 135

Query: 180 MDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFV 239
           MDGV IGRKVDLNAH+SYE+LAQTLE+MFF + P    +  +    TK  +LLDG SEFV
Sbjct: 136 MDGVAIGRKVDLNAHSSYENLAQTLEDMFFRTNPGTVGLTSQ---FTKPLRLLDGSSEFV 192

Query: 240 LTYEDKEGDWMLVGDVPWR-YATIILHLGVL-----NMVYCEVQPPN 280
           LTYEDKEGDWMLVGDVPWR +   +  L V+     N +    Q PN
Sbjct: 193 LTYEDKEGDWMLVGDVPWRMFINSVKRLRVMKTSEANGLAARNQEPN 239

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.
Arabidopsis thaliana (taxid: 3702)

>sp|Q38830|IAA12_ARATH Auxin-responsive protein IAA12 OS=Arabidopsis thaliana GN=IAA12 PE=1 SV=1

 Score =  185 bits (470), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 111/206 (53%), Positives = 128/206 (62%), Gaps = 39/206 (18%)

Query: 58  SWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGW 117
           +W E GRILTAKDFPS G                 +KR+A S   +G +SPP +SQVVGW
Sbjct: 32  AWKERGRILTAKDFPSVG-----------------SKRSAESSSHQG-ASPPRSSQVVGW 73

Query: 118 PPIGAYRMNSLVNQA--KAPISEE---EKVADEKDKSKDASKKKICNGNKTNNIFSEKAH 172
           PPIG +RMNSLVN    KA  +EE   EK   + D+ KD S K          +  +   
Sbjct: 74  PPIGLHRMNSLVNNQAMKAARAEEGDGEKKVVKNDELKDVSMK----------VNPKVQG 123

Query: 173 LGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLL 232
           LGFVKVNMDGV IGRKVD+ AH+SYE+LAQTLEEMFF  T      G       K  +LL
Sbjct: 124 LGFVKVNMDGVGIGRKVDMRAHSSYENLAQTLEEMFFGMT------GTTCREKVKPLRLL 177

Query: 233 DGLSEFVLTYEDKEGDWMLVGDVPWR 258
           DG S+FVLTYEDKEGDWMLVGDVPWR
Sbjct: 178 DGSSDFVLTYEDKEGDWMLVGDVPWR 203

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38829|IAA11_ARATH Auxin-responsive protein IAA11 OS=Arabidopsis thaliana GN=IAA11 PE=1 SV=1

 Score =  150 bits (379), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 97/224 (43%), Positives = 125/224 (55%), Gaps = 35/224 (15%)

Query: 34  DELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGT 93
           +ELELGL LSLG  G          + +C   + A D  S+    S + +S     ++G 
Sbjct: 32  NELELGLTLSLGRKG----------YRDCR--VYADDSSSSSSSSSLSRAS----VIAGI 75

Query: 94  KRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDAS 153
           KR A+S+         ++ QVVGWPPI  YRMNS+VNQAKA  +E+  +   +  +K+ S
Sbjct: 76  KRTADSMA-------ATSGQVVGWPPIRTYRMNSMVNQAKASATEDPNLEISQAVNKNRS 128

Query: 154 KKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTP 213
                +  K  N         FVKV MDG+PIGRK+DLNAH  YESL+ TLEEMF     
Sbjct: 129 -----DSTKMRNSM-------FVKVTMDGIPIGRKIDLNAHKCYESLSNTLEEMFLKPKL 176

Query: 214 AINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
              ++  +  + T    L DG S  VLTYEDKEGDWMLVGDVPW
Sbjct: 177 GSRTLETDGHMETPVKILPDGSSGLVLTYEDKEGDWMLVGDVPW 220

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

>sp|A2XB18|IAA10_ORYSI Auxin-responsive protein IAA10 OS=Oryza sativa subsp. indica GN=IAA10 PE=2 SV=2

 Score =  146 bits (368), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 108/237 (45%), Positives = 132/237 (55%), Gaps = 35/237 (14%)

Query: 32  DDDELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDF-PSAGRRPS--NASSSSPPV 88
           DD+ELELGL L       G K +       C RILTA+D  P+A   P    +SSS    
Sbjct: 30  DDEELELGLSL-------GSKKQQQQQHAPC-RILTARDLQPAAALSPDSSVSSSSPAAA 81

Query: 89  AVSGTKRA----ANSVPREGESSPPSAS-QVVGWPPIGAYRMNSLVNQAKAPISE---EE 140
           A +G KRA    A + P    S  P +S  VVGWPPI  +RMNSL NQAK   SE   ++
Sbjct: 82  AAAGGKRAEGPTATTSPGTVASGHPHSSFGVVGWPPIRQFRMNSLFNQAKENTSETDTKK 141

Query: 141 KVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESL 200
              +E D  KD  +     G K   +       G+VKVNMDG  IGRKVDLNAH SY++L
Sbjct: 142 TATNESDVQKDKEE-----GEKKGRV------AGWVKVNMDGEVIGRKVDLNAHRSYKTL 190

Query: 201 AQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
           A  LE MF  + P+I          T + KLLD  +E+ LTYED++GDWMLVGDVPW
Sbjct: 191 ALALELMF--TKPSIGLCASHN---TNSLKLLDNSAEYQLTYEDRDGDWMLVGDVPW 242

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q0DWF2|IAA10_ORYSJ Auxin-responsive protein IAA10 OS=Oryza sativa subsp. japonica GN=IAA10 PE=2 SV=2

 Score =  146 bits (368), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 108/237 (45%), Positives = 132/237 (55%), Gaps = 35/237 (14%)

Query: 32  DDDELELGLGLSLGGVGGGGKGKVVSSWGECGRILTAKDF-PSAGRRPS--NASSSSPPV 88
           DD+ELELGL L       G K +       C RILTA+D  P+A   P    +SSS    
Sbjct: 30  DDEELELGLSL-------GSKKQQQQQHAPC-RILTARDLQPAAALSPDSSVSSSSPAAA 81

Query: 89  AVSGTKRA----ANSVPREGESSPPSAS-QVVGWPPIGAYRMNSLVNQAKAPISE---EE 140
           A +G KRA    A + P    S  P +S  VVGWPPI  +RMNSL NQAK   SE   ++
Sbjct: 82  AAAGGKRAEGPTATTSPGTVASGHPHSSFGVVGWPPIRQFRMNSLFNQAKENTSETDTKK 141

Query: 141 KVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESL 200
              +E D  KD  +     G K   +       G+VKVNMDG  IGRKVDLNAH SY++L
Sbjct: 142 TATNESDVQKDKEE-----GEKKGRV------AGWVKVNMDGEVIGRKVDLNAHRSYKTL 190

Query: 201 AQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
           A  LE MF  + P+I          T + KLLD  +E+ LTYED++GDWMLVGDVPW
Sbjct: 191 ALALELMF--TKPSIGLCASHN---TNSLKLLDNSAEYQLTYEDRDGDWMLVGDVPW 242

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q38828|IAA10_ARATH Auxin-responsive protein IAA10 OS=Arabidopsis thaliana GN=IAA10 PE=2 SV=1

 Score =  124 bits (310), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 68/148 (45%), Positives = 90/148 (60%), Gaps = 7/148 (4%)

Query: 115 VGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLG 174
           VGWPP+  YR+NSLVNQAK+  +E           K+ +K  +      +  F + +   
Sbjct: 95  VGWPPLRTYRINSLVNQAKSLATEG---GLSSGIQKETTKSVVVAAKNDDACFIKSSRTS 151

Query: 175 -FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAI---NSIGGEKDLATKAFK 230
             VKV MDGV IGRKVDLNA  SY +L +TL+ MFF     +   N+ G +    T   K
Sbjct: 152 MLVKVTMDGVIIGRKVDLNALDSYAALEKTLDLMFFQIPSPVTRSNTQGYKTIKETCTSK 211

Query: 231 LLDGLSEFVLTYEDKEGDWMLVGDVPWR 258
           LLDG SE+++TY+DK+GDWMLVGDVPW+
Sbjct: 212 LLDGSSEYIITYQDKDGDWMLVGDVPWQ 239

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5W670|IAA18_ORYSJ Auxin-responsive protein IAA18 OS=Oryza sativa subsp. japonica GN=IAA18 PE=2 SV=1

 Score =  110 bits (276), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 78/216 (36%), Positives = 108/216 (50%), Gaps = 33/216 (15%)

Query: 61  ECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPI 120
           ECG+ LT  D   AG R       SPP + +    A +S P+   + PP    VVGWPPI
Sbjct: 124 ECGKELTLGDENMAGER-KKGCCPSPPCSAA----AHSSNPQGRGAIPP----VVGWPPI 174

Query: 121 GAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNM 180
            ++R N L N +    S E +  +  DK+K   KK+                   VK+NM
Sbjct: 175 RSFRRN-LTNGSSFKQSPERQNDEADDKAKPICKKR-----------------PLVKINM 216

Query: 181 DGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSI----GGEKDLATKAFK-LLDGL 235
           DG+PIGRKVDL  + SY+ L+  +EE+F     A   +     GE+    K F  LLDG 
Sbjct: 217 DGIPIGRKVDLQIYDSYQKLSSAVEELFRGFLEAQKDLSCAESGEQGAEDKIFSGLLDGT 276

Query: 236 SEFVLTYEDKEGDWMLVGDVPWR-YATIILHLGVLN 270
             + L YED +GD ML GD+PW+ + + +  L V+ 
Sbjct: 277 GVYTLVYEDNDGDRMLAGDIPWKVFVSTVKRLRVMR 312

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8LAL2|IAA26_ARATH Auxin-responsive protein IAA26 OS=Arabidopsis thaliana GN=IAA26 PE=1 SV=2

 Score =  109 bits (273), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 72/193 (37%), Positives = 99/193 (51%), Gaps = 29/193 (15%)

Query: 78  PSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIS 137
           PSN ++S P ++    KR A                VVGWPP+ ++R N L + + + + 
Sbjct: 84  PSNKTTSVPHIS---QKRTA-------------PGPVVGWPPVRSFRKN-LASTSSSKLG 126

Query: 138 EEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASY 197
            E     + +KS D  K+              K    FVK+NMDGVPIGRKVDLNA+ SY
Sbjct: 127 NESSHGGQINKSDDGEKQ-----------VETKKEGMFVKINMDGVPIGRKVDLNAYNSY 175

Query: 198 ESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
           E L+  ++++F     A   I   +        LLDG  EF LTYED EGD MLVGDVPW
Sbjct: 176 EQLSFVVDKLFRGLLAAQRDISDGQGEEKPIIGLLDGKGEFTLTYEDNEGDKMLVGDVPW 235

Query: 258 R-YATIILHLGVL 269
           + + + +  L V+
Sbjct: 236 QMFVSSVKRLRVI 248

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38826|IAA8_ARATH Auxin-responsive protein IAA8 OS=Arabidopsis thaliana GN=IAA8 PE=1 SV=1

 Score =  105 bits (262), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 69/162 (42%), Positives = 84/162 (51%), Gaps = 35/162 (21%)

Query: 106 SSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNN 165
           ++P + +QVVGWPPI +YR N++        S   K  DE D                  
Sbjct: 158 NAPAAKAQVVGWPPIRSYRKNTMA-------SSTSKNTDEVDG----------------- 193

Query: 166 IFSEKAHLG--FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGG--- 220
               K  LG  FVKV+MDG P  RKVDL  + SY+ L+  LE+MF   T     + G   
Sbjct: 194 ----KPGLGVLFVKVSMDGAPYLRKVDLRTYTSYQQLSSALEKMFSCFTLGQCGLHGAQG 249

Query: 221 -EKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYAT 261
            E+    K   LL G SEFVLTYEDK+GDWMLVGDVPW   T
Sbjct: 250 RERMSEIKLKDLLHG-SEFVLTYEDKDGDWMLVGDVPWEIFT 290

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38832|IAA14_ARATH Auxin-responsive protein IAA14 OS=Arabidopsis thaliana GN=IAA14 PE=1 SV=2

 Score =  102 bits (254), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 65/168 (38%), Positives = 86/168 (51%), Gaps = 34/168 (20%)

Query: 97  ANSVPREGE-----SSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKD 151
            N  P+E       S PP+ +QVVGWPP+  YR N + NQ                KS +
Sbjct: 55  TNGAPKEKTFLKDPSKPPAKAQVVGWPPVRNYRKNVMANQ----------------KSGE 98

Query: 152 ASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFAS 211
           A +     G            + FVKV+MDG P  RKVDL  + SY+ L+  L +MF + 
Sbjct: 99  AEEAMSSGG----------GTVAFVKVSMDGAPYLRKVDLKMYTSYKDLSDALAKMFSSF 148

Query: 212 TPAINSIGGEKDLATKAFKLLDGL--SEFVLTYEDKEGDWMLVGDVPW 257
           T       G  D   ++ K++D L  SE+V +YEDK+GDWMLVGDVPW
Sbjct: 149 TMGSYGAQGMIDFMNES-KVMDLLNSSEYVPSYEDKDGDWMLVGDVPW 195

Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations. Repression is thought to result from the interaction with auxin response factors (ARFs), proteins that bind to the auxin-responsive promoter element (AuxRE). Formation of heterodimers with ARF proteins may alter their ability to modulate early auxin response genes expression.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	283
255574879	318	Auxin-responsive protein IAA13, putative	0.784	0.698	0.660	6e-77
118484337	303	unknown [Populus trichocarpa]	0.763	0.712	0.690	5e-75
224107521	276	predicted protein [Populus trichocarpa]	0.674	0.692	0.668	3e-69
224099985	258	predicted protein [Populus trichocarpa]	0.625	0.686	0.691	2e-66
429326560	291	hypothetical protein [Populus tomentosa]	0.625	0.608	0.691	6e-66
399894421	306	ARF domain class transcription factor [P	0.678	0.627	0.660	3e-64
302398577	306	ARF domain class transcription factor [M	0.678	0.627	0.645	5e-63
359477690	321	PREDICTED: auxin-responsive protein IAA1	0.780	0.688	0.584	2e-61
296083735	283	unnamed protein product [Vitis vinifera]	0.780	0.780	0.584	3e-61
225433277	314	PREDICTED: auxin-responsive protein IAA1	0.763	0.687	0.572	1e-59

>gi|255574879|ref|XP_002528346.1| Auxin-responsive protein IAA13, putative [Ricinus communis] gi|223532214|gb|EEF34018.1| Auxin-responsive protein IAA13, putative [Ricinus communis]

 Score =  293 bits (750), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 154/233 (66%), Positives = 177/233 (75%), Gaps = 11/233 (4%)

Query: 58  SWGECGRILTAKDFPSAGRRP------SNASSSSPPVA--VSGTKRAANSVPREGESSPP 109
           +WGECGRILTAKDFPS   +P      SN  +++  VA  VSGTKRAA+SV  EG  SP 
Sbjct: 76  AWGECGRILTAKDFPSVVSQPIRCNNNSNKGTATACVAGAVSGTKRAADSVSHEG-GSPT 134

Query: 110 SASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSE 169
           +ASQ+VGWPP+  YR+NSLVNQAKA  SEE+K   E+DKSKDASKK ICNG+KTN   +E
Sbjct: 135 AASQIVGWPPVRTYRINSLVNQAKASRSEEDKSVVEQDKSKDASKK-ICNGSKTNATNNE 193

Query: 170 KAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAF 229
           K HLGFVKVNMDG+PIGRKVDLNAHASYE+LAQTLE+MFF STP+INS GGEK  +TK  
Sbjct: 194 KGHLGFVKVNMDGIPIGRKVDLNAHASYETLAQTLEDMFFRSTPSINSTGGEKQQSTKPS 253

Query: 230 KLLDGLSEFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVLNMVYCEVQPPNF 281
           KLLDG SEFVLTYEDKEGDWMLVGDVPW  + T +  L ++         P F
Sbjct: 254 KLLDGSSEFVLTYEDKEGDWMLVGDVPWGMFLTSVKRLRIMRTSEANGLAPRF 306

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118484337|gb|ABK94046.1| unknown [Populus trichocarpa]

 Score =  287 bits (734), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 156/226 (69%), Positives = 175/226 (77%), Gaps = 10/226 (4%)

Query: 51  GKGKVVSSWGECGRILTAKDFPSAGRRPS--NASSSSPPV----AVSGTKRAANSVPREG 104
           GKGK  ++WGECGRILTAKDFPS   +P   N ++S P      AVSGTKRAA+SV  EG
Sbjct: 57  GKGKA-NAWGECGRILTAKDFPSVVSQPQRPNNNNSMPSTCVVGAVSGTKRAADSVSHEG 115

Query: 105 ESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTN 164
             SP + SQVVGWPPI AYRMNSLV+QAKA  +EE+K   EKDKSK+  KKKICNGNKTN
Sbjct: 116 -GSPTAGSQVVGWPPIRAYRMNSLVSQAKAARAEEDKGIGEKDKSKENLKKKICNGNKTN 174

Query: 165 NIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDL 224
              +EK HLGFVKVNMDGVPIGRKVDLNAHA YE+LAQ LEEMFF ST  INSIGG+K L
Sbjct: 175 ATGNEKGHLGFVKVNMDGVPIGRKVDLNAHACYETLAQALEEMFFRSTTTINSIGGQKPL 234

Query: 225 ATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVL 269
            +K  KLLDG SEFVLTYEDKEGDWMLVGDVPW  + T +  L ++
Sbjct: 235 -SKFSKLLDGSSEFVLTYEDKEGDWMLVGDVPWGMFLTSVKRLRIM 279

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107521|ref|XP_002314509.1| predicted protein [Populus trichocarpa] gi|222863549|gb|EEF00680.1| predicted protein [Populus trichocarpa]

 Score =  267 bits (683), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 143/214 (66%), Positives = 158/214 (73%), Gaps = 23/214 (10%)

Query: 57  SSWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVG 116
           ++WGECGRILTAKDFPS                     RAA+SV  EG  SP + SQVVG
Sbjct: 61  NAWGECGRILTAKDFPSV--------------------RAADSVSHEG-GSPTAGSQVVG 99

Query: 117 WPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFV 176
           WPPI AYRMNSLV+QAKA  +EEEK   EKDKSK+  KKKICNGNKTN   +EK HLGFV
Sbjct: 100 WPPIRAYRMNSLVSQAKAARAEEEKGIGEKDKSKENLKKKICNGNKTNATGNEKGHLGFV 159

Query: 177 KVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLS 236
           KVNMDGVPIGRKVDLNAHA YE+LAQ LEEMFF ST  INSIGG+K L +K  KLLDG S
Sbjct: 160 KVNMDGVPIGRKVDLNAHACYETLAQALEEMFFRSTTTINSIGGQKPL-SKFSKLLDGSS 218

Query: 237 EFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVL 269
           EFVLTYEDKEGDWMLVGDVPW  + T +  L ++
Sbjct: 219 EFVLTYEDKEGDWMLVGDVPWGMFLTSVKRLRIM 252

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224099985|ref|XP_002311698.1| predicted protein [Populus trichocarpa] gi|222851518|gb|EEE89065.1| predicted protein [Populus trichocarpa]

 Score =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 137/198 (69%), Positives = 146/198 (73%), Gaps = 21/198 (10%)

Query: 60  GECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPP 119
           GE GRILTAKDFPS                     RAA+SV  EG  SP + SQVVGWPP
Sbjct: 45  GERGRILTAKDFPSV--------------------RAADSVSHEG-GSPTAGSQVVGWPP 83

Query: 120 IGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVN 179
           I AYRMNSLVNQAKA  +EE+K   EKD SKD  KKKICNGNKT+   +EK HLGFVKVN
Sbjct: 84  IRAYRMNSLVNQAKAARAEEDKGIGEKDISKDNLKKKICNGNKTSAPSNEKGHLGFVKVN 143

Query: 180 MDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFV 239
           MDG+PIGRKVDLNAHA YE+LAQ LEEMFF S   INSIGGEK   TK  KLLDGLSEF+
Sbjct: 144 MDGIPIGRKVDLNAHACYETLAQALEEMFFRSATTINSIGGEKRQVTKPSKLLDGLSEFL 203

Query: 240 LTYEDKEGDWMLVGDVPW 257
           LTYEDKEGDWMLVGDVPW
Sbjct: 204 LTYEDKEGDWMLVGDVPW 221

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|429326560|gb|AFZ78620.1| hypothetical protein [Populus tomentosa]

 Score =  256 bits (655), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 137/198 (69%), Positives = 145/198 (73%), Gaps = 21/198 (10%)

Query: 60  GECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPP 119
           GE GRILTAKDFPS                     RAA+SV  EG  SP + SQVVGWPP
Sbjct: 45  GERGRILTAKDFPSV--------------------RAADSVSHEG-GSPTAGSQVVGWPP 83

Query: 120 IGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVN 179
           I AYRMNSLVNQAKA  +EE+K   EKD SKD  KKKICNGNKT+   +EK HLGFVKVN
Sbjct: 84  IRAYRMNSLVNQAKAARAEEDKGIGEKDISKDNLKKKICNGNKTSAPSNEKGHLGFVKVN 143

Query: 180 MDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFV 239
           MDG+PIGRKVDLNAHA YE+LAQ LEEMF  S   INSIGGEK   TK  KLLDGLSEFV
Sbjct: 144 MDGIPIGRKVDLNAHACYETLAQALEEMFLRSATTINSIGGEKRQVTKPSKLLDGLSEFV 203

Query: 240 LTYEDKEGDWMLVGDVPW 257
           LTYEDKEGDWMLVGDVPW
Sbjct: 204 LTYEDKEGDWMLVGDVPW 221

Source: Populus tomentosa

Species: Populus tomentosa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|399894421|gb|AFP54302.1| ARF domain class transcription factor [Pyrus x bretschneideri]

 Score =  251 bits (640), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 138/209 (66%), Positives = 155/209 (74%), Gaps = 17/209 (8%)

Query: 58  SWGECGRILTAKDFPS---------AGRRPSNASSSSPPVAVSGTKRAANSVPREGESSP 108
           +WGE GRILTAKDFPS         A  R S+  ++S  VAVSGTKRAA+SVP+EG  SP
Sbjct: 69  AWGERGRILTAKDFPSMMVSHGGSSAASRFSHRPNASAAVAVSGTKRAADSVPQEG-GSP 127

Query: 109 PSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFS 168
            + SQVVGWPPI A RMNSLVNQAK   +E++    EK  SKD SKKKI  G+KT     
Sbjct: 128 TAVSQVVGWPPISAARMNSLVNQAKTARAEDDTAVGEK--SKDTSKKKINVGSKTT--VK 183

Query: 169 EKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKA 228
           EK HLGFVKVNMDG+PIGRKVDLNAH+ YE+LAQTLEEMF + T A   IGG+ + A K 
Sbjct: 184 EKGHLGFVKVNMDGIPIGRKVDLNAHSCYETLAQTLEEMFISPTTA---IGGDTEQAKKP 240

Query: 229 FKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
            KLLDG SEFVLTYEDKEGDWMLVGDVPW
Sbjct: 241 SKLLDGSSEFVLTYEDKEGDWMLVGDVPW 269

Source: Pyrus x bretschneideri

Species: Pyrus x bretschneideri

Genus: Pyrus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302398577|gb|ADL36583.1| ARF domain class transcription factor [Malus x domestica]

 Score =  246 bits (629), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 135/209 (64%), Positives = 153/209 (73%), Gaps = 17/209 (8%)

Query: 58  SWGECGRILTAKDFPS---------AGRRPSNASSSSPPVAVSGTKRAANSVPREGESSP 108
           +WGE GRILTAKD PS         A  R S+  ++S  VAVSGTKRAA+S P+EG  SP
Sbjct: 69  AWGERGRILTAKDLPSMVVSRGASSAASRFSHRPNASAAVAVSGTKRAADSAPQEG-GSP 127

Query: 109 PSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFS 168
            + SQVVGWPPI A RMNSLVNQAK   +E++    EK  SKD SKKKI  G+KT     
Sbjct: 128 TAVSQVVGWPPISAARMNSLVNQAKTARAEDDTAVGEK--SKDTSKKKINVGSKTT--VK 183

Query: 169 EKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKA 228
           EK HLGFVKVNMDG+PIGRKVDLNAH+ YE+LAQTLEEMF + T    +IGG+ + A K 
Sbjct: 184 EKGHLGFVKVNMDGIPIGRKVDLNAHSCYETLAQTLEEMFISPT---TTIGGDTEQAKKP 240

Query: 229 FKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
            KLLDG SEFVLTYEDKEGDWMLVGDVPW
Sbjct: 241 SKLLDGSSEFVLTYEDKEGDWMLVGDVPW 269

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477690|ref|XP_002285483.2| PREDICTED: auxin-responsive protein IAA13-like isoform 2 [Vitis vinifera]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 138/236 (58%), Positives = 160/236 (67%), Gaps = 15/236 (6%)

Query: 57  SSWGECGRILTAKDFPSAGRRPSNASSSSPPVA------VSGTKRAANSVPREGESSPPS 110
           S+WGE GRILTAKDFPS     SNASS++P  +      VSGTKRAA+S   +   S  +
Sbjct: 78  SAWGEYGRILTAKDFPSVL---SNASSTAPRFSNSSAGPVSGTKRAADSAVSQEVGSATA 134

Query: 111 ASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNG-NKTNNIFSE 169
           ASQVVGWPPI AYRMNSLVNQAKA  +E++K   E DK KD  KKK   G NK N+   E
Sbjct: 135 ASQVVGWPPIRAYRMNSLVNQAKALAAEDDKADSENDKFKDTLKKKPYTGSNKNNSTVKE 194

Query: 170 KAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFF---ASTPAINSIGGEKDLAT 226
           K HLGFVKVNMDG+PIGRKVDL+AHA Y +LAQTLE+MFF    + P I S   EK  +T
Sbjct: 195 KGHLGFVKVNMDGLPIGRKVDLDAHACYGTLAQTLEDMFFRHNTTMPPIRS-DVEKGQST 253

Query: 227 KAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVLNMVYCEVQPPNF 281
              KLLDG SEFVLTYEDKEGDWMLVGDVPW  + + +  L ++         P F
Sbjct: 254 NPSKLLDGSSEFVLTYEDKEGDWMLVGDVPWGMFLSTVKRLRIMRTSEANGLAPRF 309

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083735|emb|CBI23724.3| unnamed protein product [Vitis vinifera]

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 138/236 (58%), Positives = 160/236 (67%), Gaps = 15/236 (6%)

Query: 57  SSWGECGRILTAKDFPSAGRRPSNASSSSPPVA------VSGTKRAANSVPREGESSPPS 110
           S+WGE GRILTAKDFPS     SNASS++P  +      VSGTKRAA+S   +   S  +
Sbjct: 40  SAWGEYGRILTAKDFPSVL---SNASSTAPRFSNSSAGPVSGTKRAADSAVSQEVGSATA 96

Query: 111 ASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNG-NKTNNIFSE 169
           ASQVVGWPPI AYRMNSLVNQAKA  +E++K   E DK KD  KKK   G NK N+   E
Sbjct: 97  ASQVVGWPPIRAYRMNSLVNQAKALAAEDDKADSENDKFKDTLKKKPYTGSNKNNSTVKE 156

Query: 170 KAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFF---ASTPAINSIGGEKDLAT 226
           K HLGFVKVNMDG+PIGRKVDL+AHA Y +LAQTLE+MFF    + P I S   EK  +T
Sbjct: 157 KGHLGFVKVNMDGLPIGRKVDLDAHACYGTLAQTLEDMFFRHNTTMPPIRS-DVEKGQST 215

Query: 227 KAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVLNMVYCEVQPPNF 281
              KLLDG SEFVLTYEDKEGDWMLVGDVPW  + + +  L ++         P F
Sbjct: 216 NPSKLLDGSSEFVLTYEDKEGDWMLVGDVPWGMFLSTVKRLRIMRTSEANGLAPRF 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225433277|ref|XP_002285481.1| PREDICTED: auxin-responsive protein IAA13-like isoform 1 [Vitis vinifera]

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 134/234 (57%), Positives = 158/234 (67%), Gaps = 18/234 (7%)

Query: 57  SSWGECGRILTAKDFPSAGRRPSNASSSSPPVA------VSGTKRAANS-VPREGESSPP 109
           S+WGE GRILTAKDFPS     SNASS++P  +      VSGTKRAA+S V +E  S+  
Sbjct: 78  SAWGEYGRILTAKDFPSVL---SNASSTAPRFSNSSAGPVSGTKRAADSAVSQEVGSATA 134

Query: 110 SASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNG-NKTNNIFS 168
           ++SQVVGWPPI AYRMNSLVNQAKA  +E++K   E DK KD  KKK   G NK N+   
Sbjct: 135 ASSQVVGWPPIRAYRMNSLVNQAKALAAEDDKADSENDKFKDTLKKKPYTGSNKNNSTVK 194

Query: 169 EKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKA 228
           EK HLGFVKVNMDG+PIGRKVDL+AHA Y +LAQTLE+MFF     +         +T  
Sbjct: 195 EKGHLGFVKVNMDGLPIGRKVDLDAHACYGTLAQTLEDMFFRHNTTM------PRQSTNP 248

Query: 229 FKLLDGLSEFVLTYEDKEGDWMLVGDVPW-RYATIILHLGVLNMVYCEVQPPNF 281
            KLLDG SEFVLTYEDKEGDWMLVGDVPW  + + +  L ++         P F
Sbjct: 249 SKLLDGSSEFVLTYEDKEGDWMLVGDVPWGMFLSTVKRLRIMRTSEANGLAPRF 302

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	283
TAIR|locus:2051154	247	IAA13 "auxin-induced protein 1	0.551	0.631	0.554	2.9e-44
TAIR|locus:2197838	239	IAA12 "indole-3-acetic acid in	0.544	0.644	0.536	3.6e-40
TAIR|locus:2139890	302	IAA11 "indole-3-acetic acid in	0.515	0.483	0.468	2.3e-30
TAIR|locus:2020255	261	IAA10 "indoleacetic acid-induc	0.572	0.620	0.443	5e-28
TAIR|locus:2169955	338	IAA9 "indole-3-acetic acid ind	0.289	0.242	0.528	1.5e-24
TAIR|locus:2129900	228	IAA14 "indole-3-acetic acid in	0.296	0.368	0.494	3e-24
TAIR|locus:2094598	243	IAA7 "indole-3-acetic acid 7"	0.346	0.403	0.455	4.9e-24
UNIPROTKB|Q6AT10	212	IAA15 "Auxin-responsive protei	0.289	0.386	0.494	4.3e-23
TAIR|locus:2018374	229	AXR3 "AT1G04250" [Arabidopsis	0.286	0.353	0.471	5.4e-23
UNIPROTKB|Q75GK0	233	IAA11 "Auxin-responsive protei	0.314	0.381	0.468	1.1e-22

TAIR|locus:2051154 IAA13 "auxin-induced protein 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 421 (153.3 bits), Expect = 2.9e-44, Sum P(2) = 2.9e-44
 Identities = 92/166 (55%), Positives = 108/166 (65%)

Query:    93 TKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIXXXXXXXXXXXXXXXX 152
             +KRAA+S    G S P S+SQVVGWPPIG++RMNSLVN  +A                  
Sbjct:    56 SKRAADSASHAGSSPPRSSSQVVGWPPIGSHRMNSLVNN-QATKSAREEEEAGKKKVKDD 114

Query:   153 XXXXICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFAST 212
                 +    K N     K  +GF+KVNMDGV IGRKVDLNAH+SYE+LAQTLE+MFF + 
Sbjct:   115 EPKDVTK--KVNG----KVQVGFIKVNMDGVAIGRKVDLNAHSSYENLAQTLEDMFFRTN 168

Query:   213 PAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWR 258
             P   ++G      TK  +LLDG SEFVLTYEDKEGDWMLVGDVPWR
Sbjct:   169 PG--TVGLTSQF-TKPLRLLDGSSEFVLTYEDKEGDWMLVGDVPWR 211

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

GO:0009733 "response to auxin stimulus" evidence=RCA;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

TAIR|locus:2197838 IAA12 "indole-3-acetic acid inducible 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 388 (141.6 bits), Expect = 3.6e-40, Sum P(2) = 3.6e-40
 Identities = 89/166 (53%), Positives = 103/166 (62%)

Query:    93 TKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIXXXXXXXXXXXXXXXX 152
             +KR+A S   +G +SPP +SQVVGWPPIG +RMNSLVN                      
Sbjct:    50 SKRSAESSSHQG-ASPPRSSQVVGWPPIGLHRMNSLVNNQAMKAARAEEGDGEKKVVKND 108

Query:   153 XXXXICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFAST 212
                 +    K N    +   LGFVKVNMDGV IGRKVD+ AH+SYE+LAQTLEEMFF  T
Sbjct:   109 ELKDV--SMKVN---PKVQGLGFVKVNMDGVGIGRKVDMRAHSSYENLAQTLEEMFFGMT 163

Query:   213 PAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWR 258
                 +   EK    K  +LLDG S+FVLTYEDKEGDWMLVGDVPWR
Sbjct:   164 ---GTTCREK---VKPLRLLDGSSDFVLTYEDKEGDWMLVGDVPWR 203

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0009733 "response to auxin stimulus" evidence=IGI

GO:0009880 "embryonic pattern specification" evidence=IMP

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

GO:0005515 "protein binding" evidence=IPI

GO:0010051 "xylem and phloem pattern formation" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0048364 "root development" evidence=IMP

TAIR|locus:2139890 IAA11 "indole-3-acetic acid inducible 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 335 (123.0 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 74/158 (46%), Positives = 93/158 (58%)

Query:   100 VPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIXXXXXXXXXXXXXXXXXXXXICN 159
             + R  +S   ++ QVVGWPPI  YRMNS+VNQAKA                        N
Sbjct:    75 IKRTADSMAATSGQVVGWPPIRTYRMNSMVNQAKA----------SATEDPNLEISQAVN 124

Query:   160 GNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIG 219
              N++++  ++  +  FVKV MDG+PIGRK+DLNAH  YESL+ TLEEMF        ++ 
Sbjct:   125 KNRSDS--TKMRNSMFVKVTMDGIPIGRKIDLNAHKCYESLSNTLEEMFLKPKLGSRTLE 182

Query:   220 GEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
              +  + T    L DG S  VLTYEDKEGDWMLVGDVPW
Sbjct:   183 TDGHMETPVKILPDGSSGLVLTYEDKEGDWMLVGDVPW 220

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009733 "response to auxin stimulus" evidence=RCA;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0009506 "plasmodesma" evidence=IDA

GO:0010583 "response to cyclopentenone" evidence=RCA

TAIR|locus:2020255 IAA10 "indoleacetic acid-induced protein 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 313 (115.2 bits), Expect = 5.0e-28, P = 5.0e-28
 Identities = 75/169 (44%), Positives = 97/169 (57%)

Query:    93 TKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPIXXXXXXXXXXXXXXXX 152
             TKR+A+S P    +S  +    VGWPP+  YR+NSLVNQAK+ +                
Sbjct:    75 TKRSADSSP--AAASNATRQVAVGWPPLRTYRINSLVNQAKS-LATEGGLSSGIQKETTK 131

Query:   153 XXXXICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFA-S 211
                     +    I S +  +  VKV MDGV IGRKVDLNA  SY +L +TL+ MFF   
Sbjct:   132 SVVVAAKNDDACFIKSSRTSM-LVKVTMDGVIIGRKVDLNALDSYAALEKTLDLMFFQIP 190

Query:   212 TPAINS-IGGEKDLA-TKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWR 258
             +P   S   G K +  T   KLLDG SE+++TY+DK+GDWMLVGDVPW+
Sbjct:   191 SPVTRSNTQGYKTIKETCTSKLLDGSSEYIITYQDKDGDWMLVGDVPWQ 239

GO:0005634 "nucleus" evidence=ISM

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009733 "response to auxin stimulus" evidence=TAS

GO:0010200 "response to chitin" evidence=IEP;RCA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2169955 IAA9 "indole-3-acetic acid inducible 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 1.5e-24, Sum P(2) = 1.5e-24
 Identities = 46/87 (52%), Positives = 58/87 (66%)

Query:   175 FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPA---INSIGGEKDLA-TKAFK 230
             FVKV+MDG P  RKVDL ++ +Y  L+  LE+MF   T      N   G+  L+ TK   
Sbjct:   218 FVKVSMDGAPYLRKVDLRSYTNYGELSSALEKMFTTFTLGQCGSNGAAGKDMLSETKLKD 277

Query:   231 LLDGLSEFVLTYEDKEGDWMLVGDVPW 257
             LL+G  ++VLTYEDK+GDWMLVGDVPW
Sbjct:   278 LLNG-KDYVLTYEDKDGDWMLVGDVPW 303

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009734 "auxin mediated signaling pathway" evidence=TAS

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

GO:0009733 "response to auxin stimulus" evidence=TAS

GO:0009616 "virus induced gene silencing" evidence=RCA

GO:0010050 "vegetative phase change" evidence=RCA

TAIR|locus:2129900 IAA14 "indole-3-acetic acid inducible 14" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 3.0e-24, Sum P(2) = 3.0e-24
 Identities = 43/87 (49%), Positives = 57/87 (65%)

Query:   173 LGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLL 232
             + FVKV+MDG P  RKVDL  + SY+ L+  L +MF + T       G  D   ++ K++
Sbjct:   110 VAFVKVSMDGAPYLRKVDLKMYTSYKDLSDALAKMFSSFTMGSYGAQGMIDFMNES-KVM 168

Query:   233 DGL--SEFVLTYEDKEGDWMLVGDVPW 257
             D L  SE+V +YEDK+GDWMLVGDVPW
Sbjct:   169 DLLNSSEYVPSYEDKDGDWMLVGDVPW 195

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

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

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

GO:0010102 "lateral root morphogenesis" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=RCA;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0009741 "response to brassinosteroid stimulus" evidence=RCA

GO:0010583 "response to cyclopentenone" evidence=RCA

GO:0048527 "lateral root development" evidence=RCA

TAIR|locus:2094598 IAA7 "indole-3-acetic acid 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 204 (76.9 bits), Expect = 4.9e-24, Sum P(2) = 4.9e-24
 Identities = 46/101 (45%), Positives = 60/101 (59%)

Query:   159 NGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSI 218
             +  K  N     A  G VKV+MDG P  RKVDL  + SY+ L+  L +MF + T      
Sbjct:   110 SSEKAGNFGGGAAGAGLVKVSMDGAPYLRKVDLKMYKSYQDLSDALAKMFSSFTMGNYGA 169

Query:   219 GGEKDLATKAFKLLDGL--SEFVLTYEDKEGDWMLVGDVPW 257
              G  D   ++ KL++ L  SE+V +YEDK+GDWMLVGDVPW
Sbjct:   170 QGMIDFMNES-KLMNLLNSSEYVPSYEDKDGDWMLVGDVPW 209

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0009733 "response to auxin stimulus" evidence=TAS

GO:0009611 "response to wounding" evidence=IEP

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

GO:0009630 "gravitropism" evidence=IMP

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0007389 "pattern specification process" evidence=RCA

GO:0008361 "regulation of cell size" evidence=RCA

GO:0009269 "response to desiccation" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009926 "auxin polar transport" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010015 "root morphogenesis" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0040007 "growth" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

GO:0009414 "response to water deprivation" evidence=IMP

UNIPROTKB|Q6AT10 IAA15 "Auxin-responsive protein IAA15" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 201 (75.8 bits), Expect = 4.3e-23, Sum P(2) = 4.3e-23
 Identities = 46/93 (49%), Positives = 59/93 (63%)

Query:   168 SEKAHLGFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATK 227
             S KA   FVKV +DG P  RKVDL A+  Y+ L   L++ FF+    I  +G E+     
Sbjct:   104 SSKAK--FVKVAVDGAPYLRKVDLEAYRGYDQLLAALQDKFFSHF-TIRKLGNEE----- 155

Query:   228 AFKLLDGLS--EFVLTYEDKEGDWMLVGDVPWR 258
               KL+D +S  E+V TYEDK+GDWMLVGDVPW+
Sbjct:   156 -MKLVDAVSGNEYVPTYEDKDGDWMLVGDVPWK 187

GO:0009733 "response to auxin stimulus" evidence=IC

TAIR|locus:2018374 AXR3 "AT1G04250" [Arabidopsis thaliana (taxid:3702)]

 Score = 192 (72.6 bits), Expect = 5.4e-23, Sum P(2) = 5.4e-23
 Identities = 41/87 (47%), Positives = 57/87 (65%)

Query:   175 FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLAT--KAFKLL 232
             FVKV+MDG P  RK+DL  + SY+ L+  L  MF + T  +   GGE+ +       KL+
Sbjct:   112 FVKVSMDGAPYLRKIDLRMYKSYDELSNALSNMFSSFT--MGKHGGEEGMIDFMNERKLM 169

Query:   233 DGLS--EFVLTYEDKEGDWMLVGDVPW 257
             D ++  ++V +YEDK+GDWMLVGDVPW
Sbjct:   170 DLVNSWDYVPSYEDKDGDWMLVGDVPW 196

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009734 "auxin mediated signaling pathway" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0009733 "response to auxin stimulus" evidence=IEP;IMP;TAS

GO:0042802 "identical protein binding" evidence=IPI

UNIPROTKB|Q75GK0 IAA11 "Auxin-responsive protein IAA11" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 198 (74.8 bits), Expect = 1.1e-22, Sum P(2) = 1.1e-22
 Identities = 44/94 (46%), Positives = 58/94 (61%)

Query:   165 NIFSEKAHLG-FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKD 223
             N+ +EK      VKV+MDG P  RK+D+  + SY  L+   + MF + T  I   G  + 
Sbjct:   113 NVLAEKCKAAALVKVSMDGAPYLRKIDVAMYKSYPELSMAFQNMFTSFT--IGKCGSHQQ 170

Query:   224 LATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
             L  ++ KL D L E+V TYEDK+GDWMLVGDVPW
Sbjct:   171 LK-ESNKLRDDL-EYVPTYEDKDGDWMLVGDVPW 202

GO:0009733 "response to auxin stimulus" evidence=IC

---

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)
Q38831	IAA13_ARATH	No assigned EC number	0.5154	0.6572	0.7530	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	283
pfam02309	188	pfam02309, AUX_IAA, AUX/IAA family	1e-37

>gnl|CDD|216968 pfam02309, AUX_IAA, AUX/IAA family

 Score =  131 bits (331), Expect = 1e-37
 Identities = 63/179 (35%), Positives = 79/179 (44%), Gaps = 52/179 (29%)

Query: 79  SNASSSSPPVAVSGTKRAANSVPREGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISE 138
                 S  +     K   +       + PP+ +QVVGWPP+ +YR NSL          
Sbjct: 37  VTEDGISSSLGED--KSTISVSSNGDSAKPPAKAQVVGWPPVRSYRKNSL---------- 84

Query: 139 EEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMDGVPIGRKVDLNAHASYE 198
                                         EK    +VKV+MDG P  RKVDL  + SY+
Sbjct: 85  -----------------------------REKKSGSYVKVSMDGAPYLRKVDLKMYKSYD 115

Query: 199 SLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPW 257
            L+  LE+MF   T     IG    L      LL+G SE+V TYEDK+GDWMLVGDVPW
Sbjct: 116 ELSSALEKMFSCFT-----IGESGLL-----DLLNG-SEYVPTYEDKDGDWMLVGDVPW 163

Transcription of the AUX/IAA family of genes is rapidly induced by the plant hormone auxin. Some members of this family are longer and contain an N terminal DNA binding domain. The function of this region is uncertain. Length = 188

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	283
PF02309	215	AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A	100.0
PF00564	84	PB1: PB1 domain; InterPro: IPR000270 The Phox and	97.09
cd06398	91	PB1_Joka2 The PB1 domain is present in the Nicotia	96.96
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	96.79
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	96.42
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	96.3
cd05992	81	PB1 The PB1 domain is a modular domain mediating s	96.27
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	95.34
cd06403	80	PB1_Par6 The PB1 domain is an essential part of Pa	95.01
cd06404	83	PB1_aPKC PB1 domain is an essential modular domain	94.78
cd06401	81	PB1_TFG The PB1 domain found in TFG protein, an on	94.41
cd06402	87	PB1_p62 The PB1 domain is an essential part of p62	93.85
cd06397	82	PB1_UP1 Uncharacterized protein 1. The PB1 domain	93.09
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	88.91

>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []

Probab=100.00  E-value=2.2e-57  Score=403.86  Aligned_cols=199  Identities=38%  Similarity=0.539  Sum_probs=6.0

Q ss_pred             CCCccceeccccCCCCCCC----CC--CCCCccccCcccccccccCCCCCCCCCCCCCCCCCCCCccccccccc-CCCCC
Q 023395           29 VESDDDELELGLGLSLGGV----GG--GGKGKVVSSWGECGRILTAKDFPSAGRRPSNASSSSPPVAVSGTKRA-ANSVP  101 (283)
Q Consensus        29 ~~~~etEL~LGLpg~~g~~----~~--~~k~~~krgfset~~lL~~k~~~~~~~~~~~~~s~~~~~~~~~~kr~-~~~~~  101 (283)
                      |||++|||||||||+....    ..  ......||+|+++++.-..........  ...    ... ....... .....
T Consensus         1 ln~~~TELrLGLPG~~~~~~~~~~~~~~~~~~~kR~F~~aid~~~~~~~~~~~~--~~~----~~~-~~~~~~~~~~~~~   73 (215)
T PF02309_consen    1 LNLKATELRLGLPGSESPDASSSSSSKKSSSGNKRGFSEAIDSSSSNSQSSSSS--SSD----SSS-SSSSSSTSSSSSD   73 (215)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCchhhhhcccCCCCCCCCcccccccccccCcccccchhhhhhccccccccccc--ccc----cCc-ccccccccccccc
Confidence            7899999999999973221    00  224456999999988743221111000  000    000 0000000 01111


Q ss_pred             CCCCCCCCCCCCcccCCCchhhhhhccccccCCCCchhhhhhhcccccchhhhhhhcCCCCCccccccccccceeEEEec
Q 023395          102 REGESSPPSASQVVGWPPIGAYRMNSLVNQAKAPISEEEKVADEKDKSKDASKKKICNGNKTNNIFSEKAHLGFVKVNMD  181 (283)
Q Consensus       102 ~~~~~ppa~~aqVVGWPPVRS~RkN~~~~q~k~~~~e~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~s~~fVKV~Md  181 (283)
                      .....+|+.++|||||||||+||+|++...+..                                    ..++||||+||
T Consensus        74 ~~~~~~p~~~~~~vgwpp~~s~r~n~~~~~~~~------------------------------------~~~~~vKV~md  117 (215)
T PF02309_consen   74 SSSSSPPASKAQVVGWPPVRSFRKNSLSEKQSS------------------------------------SSRSYVKVNMD  117 (215)
T ss_dssp             ------------BTTBS----S----------------------------------------------------------
T ss_pred             cccCCCCcccccccCCCcccccccccccccccc------------------------------------cCCceeEEEec
Confidence            233344544499999999999999998721100                                    01379999999


Q ss_pred             CcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcC--CCCceEEEEEeCCCCeEEccCcChHH
Q 023395          182 GVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLD--GLSEFVLTYEDKEGDWMLVGDVPWRY  259 (283)
Q Consensus       182 G~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D--~~seyvltYEDkEGDwMLVGDVPWem  259 (283)
                      |+||||||||++|+||++|+.+|++||.+|.+..++.     +..++.++++  ++++|+|||||+||||||||||||+|
T Consensus       118 G~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~-----~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD~PW~~  192 (215)
T PF02309_consen  118 GVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGS-----HGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGDVPWEE  192 (215)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CcccceecCHHHhhCHHHHHHHHHHhcCCCCcccccc-----ccccchhhccccCCcceeEEEECCCCCEEEecCCCHHH
Confidence            9999999999999999999999999998876654422     1223334444  45699999999999999999999999


Q ss_pred             HHHHhhhheeecceeec
Q 023395          260 ATIILHLGVLNMVYCEV  276 (283)
Q Consensus       260 Fv~sVr~i~l~~~~~~~  276 (283)
                      ||++||||+| +..-|+
T Consensus       193 F~~~vkRl~I-~~~~e~  208 (215)
T PF02309_consen  193 FVKSVKRLRI-MKSSEA  208 (215)
T ss_dssp             -----------------
T ss_pred             HHHHhhccEE-ecHHHh
Confidence            9999998888 444443

The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.

>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins

Probab=97.09  E-value=0.0022  Score=48.32  Aligned_cols=67  Identities=28%  Similarity=0.395  Sum_probs=54.2

Q ss_pred             eeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc-
Q 023395          175 FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG-  253 (283)
Q Consensus       175 fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG-  253 (283)
                      -||+...|. +=|.+.+..--+|++|...+++.|..     .                  ...+.|.|.|.||||..+- 
T Consensus         3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~-----~------------------~~~~~l~Y~D~dgD~V~i~s   58 (84)
T PF00564_consen    3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGL-----L------------------DEDFQLKYKDEDGDLVTISS   58 (84)
T ss_dssp             EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTT-----S------------------TSSEEEEEEETTSSEEEESS
T ss_pred             EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCC-----C------------------CccEEEEeeCCCCCEEEeCC
Confidence            489999997 43458888888999999999999972     1                  1468999999999999887 


Q ss_pred             CcChHHHHHHhh
Q 023395          254 DVPWRYATIILH  265 (283)
Q Consensus       254 DVPWemFv~sVr  265 (283)
                      |.=|++.++.++
T Consensus        59 d~Dl~~a~~~~~   70 (84)
T PF00564_consen   59 DEDLQEAIEQAK   70 (84)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            455788777775

The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....

>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein

Probab=96.96  E-value=0.003  Score=50.65  Aligned_cols=68  Identities=24%  Similarity=0.324  Sum_probs=52.1

Q ss_pred             eeEEEecCcccceeeecC---CCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEE
Q 023395          175 FVKVNMDGVPIGRKVDLN---AHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWML  251 (283)
Q Consensus       175 fVKV~MdG~piGRKVDL~---~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwML  251 (283)
                      -|||.-+|.-+=-++++.   ..-+|++|.+.+.+.|.     +.                 ...+|+|.|.|.||||..
T Consensus         2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~-----l~-----------------~~~~~~l~Y~Dedgd~V~   59 (91)
T cd06398           2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFS-----LS-----------------PDADLSLTYTDEDGDVVT   59 (91)
T ss_pred             EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhC-----CC-----------------CCCcEEEEEECCCCCEEE
Confidence            489999998444455553   46799999999999997     32                 125799999999999999


Q ss_pred             ccCcChHHHHHHhhh
Q 023395          252 VGDVPWRYATIILHL  266 (283)
Q Consensus       252 VGDVPWemFv~sVr~  266 (283)
                      +-+.  +.|...+..
T Consensus        60 l~~D--~DL~~a~~~   72 (91)
T cd06398          60 LVDD--NDLTDAIQY   72 (91)
T ss_pred             EccH--HHHHHHHHH
Confidence            8765  677766653

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. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module

>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)

Probab=96.79  E-value=0.0054  Score=48.21  Aligned_cols=65  Identities=20%  Similarity=0.308  Sum_probs=48.3

Q ss_pred             eeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccC
Q 023395          175 FVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGD  254 (283)
Q Consensus       175 fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGD  254 (283)
                      =|||...|.  -+.+-|..--+|++|.+.+.++|.     +.                 ....|.|-|.|.||||.++--
T Consensus         2 ~vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~-----~~-----------------~~~~f~LkY~Ddegd~v~lts   57 (82)
T cd06407           2 RVKATYGEE--KIRFRLPPSWGFTELKQEIAKRFK-----LD-----------------DMSAFDLKYLDDDEEWVLLTC   57 (82)
T ss_pred             EEEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhC-----CC-----------------CCCeeEEEEECCCCCeEEeec
Confidence            389999887  445556666699999999999997     21                 125799999999999998753


Q ss_pred             cChHHHHHHhh
Q 023395          255 VPWRYATIILH  265 (283)
Q Consensus       255 VPWemFv~sVr  265 (283)
                      .  ..+-++++
T Consensus        58 d--~DL~eai~   66 (82)
T cd06407          58 D--ADLEECID   66 (82)
T ss_pred             H--HHHHHHHH
Confidence            3  44555544

The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte

>smart00666 PB1 PB1 domain

Probab=96.42  E-value=0.02  Score=43.03  Aligned_cols=65  Identities=25%  Similarity=0.399  Sum_probs=51.6

Q ss_pred             eEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc-C
Q 023395          176 VKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG-D  254 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG-D  254 (283)
                      |||.-.|  --|.+-+..--+|++|...+.+.|.     ..                  ...+.|.|+|.||||..+- |
T Consensus         4 vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~-----~~------------------~~~~~l~Y~Dedgd~v~l~sd   58 (81)
T smart00666        4 VKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFG-----LD------------------NQSFTLKYQDEDGDLVSLTSD   58 (81)
T ss_pred             EEEEECC--EEEEEEECCCCCHHHHHHHHHHHhC-----CC------------------CCCeEEEEECCCCCEEEecCH
Confidence            6777754  3677778888999999999999997     21                  1368999999999998766 5


Q ss_pred             cChHHHHHHhh
Q 023395          255 VPWRYATIILH  265 (283)
Q Consensus       255 VPWemFv~sVr  265 (283)
                      .=|++.+..++
T Consensus        59 ~Dl~~a~~~~~   69 (81)
T smart00666       59 EDLEEAIEEYD   69 (81)
T ss_pred             HHHHHHHHHHH
Confidence            77788777776

Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.

>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

Probab=96.30  E-value=0.014  Score=46.39  Aligned_cols=63  Identities=19%  Similarity=0.253  Sum_probs=48.9

Q ss_pred             eEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc-C
Q 023395          176 VKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG-D  254 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG-D  254 (283)
                      |||.-.|.-+=-+++-+..-+|++|...+.++|.     +.                    .|.|.|-|.||||.++= |
T Consensus         3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~-----l~--------------------~f~lKYlDde~e~v~lssd   57 (81)
T cd06396           3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFG-----LN--------------------DIQIKYVDEENEEVSVNSQ   57 (81)
T ss_pred             EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhC-----CC--------------------cceeEEEcCCCCEEEEEch
Confidence            7889999877677777778899999999999997     21                    47899999999998874 3


Q ss_pred             cChHHHHHH
Q 023395          255 VPWRYATII  263 (283)
Q Consensus       255 VPWemFv~s  263 (283)
                      .=-++.+..
T Consensus        58 ~eLeE~~rl   66 (81)
T cd06396          58 GEYEEALKS   66 (81)
T ss_pred             hhHHHHHHH
Confidence            333444433

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.

>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

Probab=96.27  E-value=0.028  Score=41.99  Aligned_cols=66  Identities=26%  Similarity=0.333  Sum_probs=50.2

Q ss_pred             eeEEEecCcccceeeecC-CCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          175 FVKVNMDGVPIGRKVDLN-AHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       175 fVKV~MdG~piGRKVDL~-~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      -|||+-.|.  =|.+=+. ..-+|++|...|.+.|.     ..                  ...+.+.|.|.||||..+.
T Consensus         2 ~vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~-----~~------------------~~~~~l~y~D~e~d~v~l~   56 (81)
T cd05992           2 RVKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFG-----LD------------------AVSFKLKYPDEDGDLVTIS   56 (81)
T ss_pred             cEEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhC-----CC------------------CCcEEEEeeCCCCCEEEeC
Confidence            377777765  3444444 88899999999999997     21                  0368999999999999998


Q ss_pred             C-cChHHHHHHhh
Q 023395          254 D-VPWRYATIILH  265 (283)
Q Consensus       254 D-VPWemFv~sVr  265 (283)
                      + .=|++.++.++
T Consensus        57 sd~Dl~~a~~~~~   69 (81)
T cd05992          57 SDEDLEEAIEEAR   69 (81)
T ss_pred             CHHHHHHHHHHHh
Confidence            7 66666666665

A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.

>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

Probab=95.34  E-value=0.036  Score=44.37  Aligned_cols=60  Identities=22%  Similarity=0.242  Sum_probs=42.1

Q ss_pred             cccceeeecC--CCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccCcChHHH
Q 023395          183 VPIGRKVDLN--AHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYA  260 (283)
Q Consensus       183 ~piGRKVDL~--~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGDVPWemF  260 (283)
                      .|-||.+=++  ...||.+|..++.+-|+     +.       +.        ....|.|.|.|.||||.|.--.  ...
T Consensus         7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~-----~d-------~~--------~~~~~~L~YlDDEgD~VllT~D--~DL   64 (86)
T cd06409           7 DPKGRVHRFRLRPSESLEELRTLISQRLG-----DD-------DF--------ETHLYALSYVDDEGDIVLITSD--SDL   64 (86)
T ss_pred             CCCCCEEEEEecCCCCHHHHHHHHHHHhC-----Cc-------cc--------cCCcccEEEEcCCCCEEEEecc--chH
Confidence            4567765554  47899999999999997     22       00        1257999999999999987532  333


Q ss_pred             HHHh
Q 023395          261 TIIL  264 (283)
Q Consensus       261 v~sV  264 (283)
                      +++|
T Consensus        65 ~e~v   68 (86)
T cd06409          65 VAAV   68 (86)
T ss_pred             HHHH
Confidence            4444

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. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is

>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

Probab=95.01  E-value=0.067  Score=42.60  Aligned_cols=64  Identities=23%  Similarity=0.325  Sum_probs=44.8

Q ss_pred             eEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccCc
Q 023395          176 VKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDV  255 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGDV  255 (283)
                      ||..-|..=-=-.+|.....+|++++.-|+.||.     +.                  ...|+|.|.|.+||.+-+-..
T Consensus         3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~-----l~------------------~~~f~i~Y~D~~gDLLPInND   59 (80)
T cd06403           3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHH-----IP------------------NVDFLIGYTDPHGDLLPINND   59 (80)
T ss_pred             eecccCCeEEEEEeccccCcCHHHHHHHHHHHhC-----CC------------------CCcEEEEEeCCCCCEecccCc
Confidence            5555555422224555566999999999999997     32                  147999999999999988643


Q ss_pred             ChHHHHHHh
Q 023395          256 PWRYATIIL  264 (283)
Q Consensus       256 PWemFv~sV  264 (283)
                        +.|.+.+
T Consensus        60 --dNf~kAl   66 (80)
T cd06403          60 --DNFLKAL   66 (80)
T ss_pred             --HHHHHHH
Confidence              4444443

The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The

>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

Probab=94.78  E-value=0.16  Score=40.73  Aligned_cols=69  Identities=25%  Similarity=0.249  Sum_probs=53.8

Q ss_pred             eEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccCc
Q 023395          176 VKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDV  255 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGDV  255 (283)
                      ||+.-.|.-.--.+|.  .-+|++|.+.+.+||..     .                 ....|++.|.|.|||---+...
T Consensus         3 ~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~-----~-----------------~~q~ft~kw~DEEGDp~tiSS~   58 (83)
T cd06404           3 VKAAYNGDIMITSIDP--SISLEELCNEVRDMCRF-----H-----------------NDQPFTLKWIDEEGDPCTISSQ   58 (83)
T ss_pred             EEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCC-----C-----------------CCCcEEEEEECCCCCceeecCH
Confidence            7889999855555665  77899999999999982     1                 1246999999999999988766


Q ss_pred             ChHHHHHHhhhheee
Q 023395          256 PWRYATIILHLGVLN  270 (283)
Q Consensus       256 PWemFv~sVr~i~l~  270 (283)
                        +++.+..|+--++
T Consensus        59 --~EL~EA~rl~~~n   71 (83)
T cd06404          59 --MELEEAFRLYELN   71 (83)
T ss_pred             --HHHHHHHHHHHhc
Confidence              6777777765554

PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,

>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

Probab=94.41  E-value=0.14  Score=40.79  Aligned_cols=58  Identities=19%  Similarity=0.477  Sum_probs=42.0

Q ss_pred             eEEEecCcccceeeecCCC-cChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccC
Q 023395          176 VKVNMDGVPIGRKVDLNAH-ASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGD  254 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~-~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGD  254 (283)
                      +|+.-.+. | |++=+..- -+|.+|...+.+.|..-.                    -....+.+.|.|.|||+.-|-+
T Consensus         3 iK~~~g~D-i-R~~~~~~~~~t~~~L~~~v~~~F~~~~--------------------~~~~~flIKYkD~dGDlVTIts   60 (81)
T cd06401           3 LKAQLGDD-I-RRIPIHNEDITYDELLLMMQRVFRGKL--------------------GSSDDVLIKYKDEDGDLITIFD   60 (81)
T ss_pred             EEEEeCCe-E-EEEeccCccccHHHHHHHHHHHhcccc--------------------CCcccEEEEEECCCCCEEEecc
Confidence            67666654 4 44444432 399999999999998210                    1235799999999999999987


Q ss_pred             c
Q 023395          255 V  255 (283)
Q Consensus       255 V  255 (283)
                      -
T Consensus        61 ~   61 (81)
T cd06401          61 S   61 (81)
T ss_pred             H
Confidence            4

The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.

>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

Probab=93.85  E-value=0.28  Score=39.37  Aligned_cols=59  Identities=27%  Similarity=0.370  Sum_probs=42.6

Q ss_pred             eeEEEecC---cccceee--ecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCe
Q 023395          175 FVKVNMDG---VPIGRKV--DLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDW  249 (283)
Q Consensus       175 fVKV~MdG---~piGRKV--DL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDw  249 (283)
                      +||.+..|   .+==|++  |=....+|++|...+.++|..    +                .  ...|+|.|.|.|||.
T Consensus         2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~----l----------------~--~~~ftlky~DeeGDl   59 (87)
T cd06402           2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPS----L----------------R--GKNFQLFWKDEEGDL   59 (87)
T ss_pred             eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccc----c----------------C--CCcEEEEEECCCCCE
Confidence            57777766   2223444  446667999999999999962    1                1  147999999999999


Q ss_pred             EEccCc
Q 023395          250 MLVGDV  255 (283)
Q Consensus       250 MLVGDV  255 (283)
                      .-+-..
T Consensus        60 vtIssd   65 (87)
T cd06402          60 VAFSSD   65 (87)
T ss_pred             EeecCH
Confidence            877653

The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.

>cd06397 PB1_UP1 Uncharacterized protein 1

Probab=93.09  E-value=0.34  Score=38.79  Aligned_cols=63  Identities=21%  Similarity=0.312  Sum_probs=48.1

Q ss_pred             eEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccCc
Q 023395          176 VKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDV  255 (283)
Q Consensus       176 VKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGDV  255 (283)
                      -||.-.|.  .|++-...-=+|..|...|+.+|.     +.    .              -.+.|||.|.|||..-+-|.
T Consensus         3 fKv~~~g~--~RRf~~~~~pt~~~L~~kl~~Lf~-----lp----~--------------~~~~vtYiDeD~D~ITlssd   57 (82)
T cd06397           3 FKSSFLGD--TRRIVFPDIPTWEALASKLENLYN-----LP----E--------------IKVGVTYIDNDNDEITLSSN   57 (82)
T ss_pred             EEEEeCCc--eEEEecCCCccHHHHHHHHHHHhC-----CC----h--------------hHeEEEEEcCCCCEEEecch
Confidence            37777774  788888888899999999999998     32    0              12889999999999877654


Q ss_pred             ChHHHHHHhh
Q 023395          256 PWRYATIILH  265 (283)
Q Consensus       256 PWemFv~sVr  265 (283)
                        +++.+..|
T Consensus        58 --~eL~d~~~   65 (82)
T cd06397          58 --KELQDFYR   65 (82)
T ss_pred             --HHHHHHHH
Confidence              44444444

The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.

>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

Probab=88.91  E-value=1.5  Score=35.20  Aligned_cols=65  Identities=17%  Similarity=0.266  Sum_probs=49.4

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .-|||+-.|.  .|-|-+..-=+|++|...+.++|.     +.                   ..++|-|.|. ||..-++
T Consensus         3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~-----~~-------------------~~~~iKykDE-GD~iti~   55 (86)
T cd06408           3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFG-----FK-------------------RRLKIKMKDD-GDMITMG   55 (86)
T ss_pred             EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhC-----CC-------------------CceEEEEEcC-CCCcccc
Confidence            4589998887  566666667779999999999997     21                   2688999999 9999888


Q ss_pred             Cc-ChHHHHHHhh
Q 023395          254 DV-PWRYATIILH  265 (283)
Q Consensus       254 DV-PWemFv~sVr  265 (283)
                      |- =-+|=+.++|
T Consensus        56 sq~DLd~Ai~~a~   68 (86)
T cd06408          56 DQDDLDMAIDTAR   68 (86)
T ss_pred             CHHHHHHHHHHHH
Confidence            73 3345555554

NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	283
1vd2_A	89	Protein kinase C, IOTA type; PB1 domain, OPCA moti	95.47
1wmh_B	86	Partitioning defective-6 homolog alpha; kinase, PB	95.28
2kkc_A	102	Sequestosome-1; P62, PB1, autophagy, ubiquitin-pro	93.6
2ktr_A	117	Sequestosome-1; autophagy, NF-KB signaling, HOMO-o	91.7
1q1o_A	98	Cell division control protein 24; PB1 domain, PCCR	90.17
1wj6_A	101	KIAA0049 protein, RSGI RUH-024; PB1 domain, protei	80.56

>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A

Probab=95.47  E-value=0.032  Score=43.67  Aligned_cols=69  Identities=20%  Similarity=0.201  Sum_probs=50.8

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .=||++-.|.-+  .+.+...-+|++|.+.|.++|.     +.                 ....+++.|.|.|||+.-+-
T Consensus         7 vkvK~~~~gdi~--~~~v~~~i~~~~L~~kv~~~~~-----~~-----------------~~~~f~lky~DEeGD~itis   62 (89)
T 1vd2_A            7 VRVKAYYRGDIM--ITHFEPSISFEGLCNEVRDMCS-----FD-----------------NEQLFTMKWIDEEGDPCTVS   62 (89)
T ss_dssp             EEEEEESSSCEE--EEEECTTCCHHHHHHHHHHHTT-----CC-----------------SSCCEEEEECCSSSCCEECC
T ss_pred             EEEEEEeCCeEE--EEECCCCCCHHHHHHHHHHHhC-----CC-----------------CCCeEEEEEECCCCCccccc
Confidence            678999999744  4444456799999999999997     21                 12469999999999998876


Q ss_pred             CcChHHHHHHhhhhe
Q 023395          254 DVPWRYATIILHLGV  268 (283)
Q Consensus       254 DVPWemFv~sVr~i~  268 (283)
                      ..  ++.-...|+..
T Consensus        63 Sd--~EL~eAl~l~~   75 (89)
T 1vd2_A           63 SQ--LELEEAFRLYE   75 (89)
T ss_dssp             SH--HHHHHHHHHHH
T ss_pred             CH--HHHHHHHHHHH
Confidence            54  55555555433

>1wmh_B Partitioning defective-6 homolog alpha; kinase, PB1 domain, OPCA motif, APKC, cell polarity, transferase/cell cycle complex; 1.50A {Homo sapiens} SCOP: d.15.2.2

Probab=95.28  E-value=0.04  Score=43.11  Aligned_cols=67  Identities=16%  Similarity=0.151  Sum_probs=51.7

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .-||..-|..--=-.+|-....+|++|+.-|+++|.     +.                  ..+|++.|.|.|||++-+=
T Consensus         7 l~vKskf~aE~RRFs~d~~~~~~fe~f~~lv~~lh~-----L~------------------~~~f~i~Y~D~dGDLlpIn   63 (86)
T 1wmh_B            7 VEVKSKFDAEFRRFALPRASVSGFQEFSRLLRAVHQ-----IP------------------GLDVLLGYTDAHGDLLPLT   63 (86)
T ss_dssp             EEEEEEETTEEEEEEEEGGGCCCHHHHHHHHHHHTT-----CT------------------TCCCEEEEECTTSCEEECC
T ss_pred             EEEEeecCCeeeEeEccCCCCCCHHHHHHHHHHHcC-----CC------------------CCCEEEEEECCCCCEeeec
Confidence            568888888743335565677899999999999997     21                  1369999999999999887


Q ss_pred             CcChHHHHHHhh
Q 023395          254 DVPWRYATIILH  265 (283)
Q Consensus       254 DVPWemFv~sVr  265 (283)
                      +.  ++|...+.
T Consensus        64 nD--dnl~~Al~   73 (86)
T 1wmh_B           64 ND--DSLHRALA   73 (86)
T ss_dssp             SH--HHHHHHTT
T ss_pred             CH--HHHHHHHH
Confidence            76  67766653

>2kkc_A Sequestosome-1; P62, PB1, autophagy, ubiquitin-proteasome system, NF-KB signaling, alternative splicing, apoptosis, cytoplasm, differentiation; NMR {Rattus norvegicus} PDB: 2ktr_B

Probab=93.60  E-value=0.14  Score=41.05  Aligned_cols=60  Identities=22%  Similarity=0.200  Sum_probs=43.9

Q ss_pred             ceeEEEecCc----ccceeeecCC-----------CcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCce
Q 023395          174 GFVKVNMDGV----PIGRKVDLNA-----------HASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEF  238 (283)
Q Consensus       174 ~fVKV~MdG~----piGRKVDL~~-----------~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~sey  238 (283)
                      .-||++..|.    .==|++-|..           ..+|++|...+.++|..                    |.  +..|
T Consensus         6 ~~vKayl~~~~~~~~EiRRF~l~~~~~p~~~~~~~~~s~~~L~~~V~~lFp~--------------------l~--~~~f   63 (102)
T 2kkc_A            6 LTVKAYLLGKEEAAREIRRFSFCFSPEPEAEAAAGPGPCERLLSRVAVLFPA--------------------LR--PGGF   63 (102)
T ss_dssp             EEEEEEEECSSSCEEEEEEEEEESSSCSCSSSCCSCCHHHHHHHHHHHHCTT--------------------SC--SSCE
T ss_pred             EEEEEEEccCCCCCCceEEEEeccCCCcccccccccccHHHHHHHHHHHccc--------------------cC--CCcE
Confidence            6789888752    2345555532           24899999999999972                    11  2469


Q ss_pred             EEEEEeCCCCeEEccCc
Q 023395          239 VLTYEDKEGDWMLVGDV  255 (283)
Q Consensus       239 vltYEDkEGDwMLVGDV  255 (283)
                      +|.|.|.|||+.-+-+.
T Consensus        64 ~l~Y~DedGDlItiSsD   80 (102)
T 2kkc_A           64 QAHYRAERGDLVAFSSD   80 (102)
T ss_dssp             EEEEECTTCCEEEECSH
T ss_pred             EEEEECCCCCEEEecCH
Confidence            99999999999888764

>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1 dimer, signaling protein, transport protein; NMR {Rattus norvegicus}

Probab=91.70  E-value=0.38  Score=39.45  Aligned_cols=60  Identities=20%  Similarity=0.201  Sum_probs=43.9

Q ss_pred             ceeEEEecCc----ccceeeecC-----------CCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCce
Q 023395          174 GFVKVNMDGV----PIGRKVDLN-----------AHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEF  238 (283)
Q Consensus       174 ~fVKV~MdG~----piGRKVDL~-----------~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~sey  238 (283)
                      .-||++..|.    .==|++=|.           .-.+|++|...+.++|..    +                .  ...|
T Consensus        21 l~vKayl~~~~~~~~EIRRF~l~~~~~p~~~~~~~~~s~~~L~~kV~~lFp~----L----------------~--~~~f   78 (117)
T 2ktr_A           21 LTVKAYLLGKEEAAREIRRFSFCFSPEPEAEAAAGPGPSERLLSRVAVLFPA----L----------------R--PGGF   78 (117)
T ss_dssp             EEEEEEEECSSSCEEEEEEEEECSSSCSCSSSCCSCCHHHHHHHHHHHHCTT----S----------------C--SSCE
T ss_pred             EEEEEEEecCCCCCCcEEEEEeccCCCccccccccCCCHHHHHHHHHHHccc----c----------------C--CCcE
Confidence            7899999752    123555553           135999999999999962    1                1  2469


Q ss_pred             EEEEEeCCCCeEEccCc
Q 023395          239 VLTYEDKEGDWMLVGDV  255 (283)
Q Consensus       239 vltYEDkEGDwMLVGDV  255 (283)
                      +|.|.|.|||+.-+-..
T Consensus        79 ~l~YkDEdGDlItISsD   95 (117)
T 2ktr_A           79 QAHYRAERGDLVAFSSD   95 (117)
T ss_dssp             EEEEECTTCCEEEECSH
T ss_pred             EEEEECCCCCEEEecCH
Confidence            99999999999887654

>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif, OPCA motif, yeast, cell polarity, protein-protein interaction; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 2kfj_A 2kfk_B

Probab=90.17  E-value=0.81  Score=36.47  Aligned_cols=74  Identities=12%  Similarity=0.239  Sum_probs=54.2

Q ss_pred             ceeEEEecCc------ccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCC
Q 023395          174 GFVKVNMDGV------PIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEG  247 (283)
Q Consensus       174 ~fVKV~MdG~------piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEG  247 (283)
                      .-|||+-+..      .=.|.|=+..--+|++|...+.+-|..+.       ..  +         -+....|-|+|.||
T Consensus         6 ikVKv~y~~~~~~~~~~d~~~i~V~~~i~f~~L~~kI~~Kl~~~~-------~~--~---------i~~~~klkYkDEdG   67 (98)
T 1q1o_A            6 ILFRISYNNNSNNTSSSEIFTLLVEKVWNFDDLIMAINSKISNTH-------NN--N---------ISPITKIKYQDEDG   67 (98)
T ss_dssp             EEEEEEECSSCSSCCCCEEEEEEECTTCCHHHHHHHHHHHHHHHC-------SS--C---------CCCCCCEEEECSSS
T ss_pred             EEEEEEecCcccccccCcEEEEEecCCCCHHHHHHHHHHHHcCCc-------cc--c---------ccceeEEEEEcCCC
Confidence            5788887742      12366667788899999999999998320       00  0         01346799999999


Q ss_pred             CeEEccC-cChHHHHHHhh
Q 023395          248 DWMLVGD-VPWRYATIILH  265 (283)
Q Consensus       248 DwMLVGD-VPWemFv~sVr  265 (283)
                      |+...++ .=|+|=++++|
T Consensus        68 D~Vtl~sddDl~~A~e~~~   86 (98)
T 1q1o_A           68 DFVVLGSDEDWNVAKEMLA   86 (98)
T ss_dssp             CEEEECSHHHHHHHHHHHH
T ss_pred             CEEEEcCHHHHHHHHHHHH
Confidence            9987775 78999999987

>1wj6_A KIAA0049 protein, RSGI RUH-024; PB1 domain, protein binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: d.15.2.2

Probab=80.56  E-value=4.6  Score=32.42  Aligned_cols=66  Identities=11%  Similarity=0.096  Sum_probs=51.2

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .-+||+--|...=--|.-..--++++|-..|..+|.     +                    .+++|.|-|.|||-.-| 
T Consensus        15 v~lkV~f~ge~~rF~Vs~~~~~tweel~~mvk~~f~-----L--------------------~~~~IkY~DEenD~V~i-   68 (101)
T 1wj6_A           15 VTLNVTFKNEIQSFLVSDPENTTWADIEAMVKVSFD-----L--------------------NTIQIKYLDEENEEVSI-   68 (101)
T ss_dssp             EEEEEEETTEEEEEEESCTTTSCHHHHHHHHHHHHC-----C--------------------SSBCCEEECTTSCEECC-
T ss_pred             EEEEEEEcCCeeEEEecCCCCCCHHHHHHHHHHHcC-----C--------------------CceEEEEecCCCCEEEE-
Confidence            468999999854444644457789999999999996     2                    25789999999999888 


Q ss_pred             CcChHHHHHHhhh
Q 023395          254 DVPWRYATIILHL  266 (283)
Q Consensus       254 DVPWemFv~sVr~  266 (283)
                       .-+.+|-+.+|.
T Consensus        69 -~Sq~E~eEAlkv   80 (101)
T 1wj6_A           69 -NSQGEYEEALKM   80 (101)
T ss_dssp             -CSHHHHHHHHHH
T ss_pred             -ecHHHHHHHHHH
Confidence             557888877763

---

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	283
d2bkfa1	85	Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum	96.75
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	95.56
d1wmhb_	82	Partitioning defective-6 homolog alpha, PAR-6 alph	84.08

>d2bkfa1 d.15.2.2 (A:1-85) Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Next to BRCA1 gene 1 protein, NBR1 (KIAA0049)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.75  E-value=0.0014  Score=49.37  Aligned_cols=67  Identities=12%  Similarity=0.130  Sum_probs=53.0

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .=|||+..|..+=-+|-+....+|++|...|.+.|.     ++                    ++.|.|.|.|+||.++.
T Consensus         5 vtvKvtf~~dt~RF~ls~~~~~~~~~L~~~i~~rf~-----l~--------------------~~~lkY~Ddd~e~v~l~   59 (85)
T d2bkfa1           5 VTLNVTFKNEIQSFLVSDPENTTWADIEAMVKVSFD-----LN--------------------TIQIKYLDEENEEVSIN   59 (85)
T ss_dssp             EEEEEEETTEEEEEEESCGGGCCHHHHHHHHHHHHT-----CS--------------------SEEEEEECTTSCEEEEC
T ss_pred             EEEEEEECCceEEEEecCCCCCcHHHHHHHHHHhcC-----cc--------------------cceEEEEcCCCCEEEEe
Confidence            468999988866557777788899999999999997     21                    37799999999998875


Q ss_pred             -CcChHHHHHHhh
Q 023395          254 -DVPWRYATIILH  265 (283)
Q Consensus       254 -DVPWemFv~sVr  265 (283)
                       |.=.++..+.++
T Consensus        60 ~d~dl~E~~~~a~   72 (85)
T d2bkfa1          60 SQGEYEEALKMAV   72 (85)
T ss_dssp             SHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHh
Confidence             555666666554

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.56  E-value=0.0081  Score=44.24  Aligned_cols=55  Identities=13%  Similarity=0.093  Sum_probs=43.4

Q ss_pred             ceeEEEecCcccceeeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEcc
Q 023395          174 GFVKVNMDGVPIGRKVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVG  253 (283)
Q Consensus       174 ~fVKV~MdG~piGRKVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVG  253 (283)
                      .-|||+.++.-+  .+=|..--+|.+|...+.+.|.     +                    ..++|-|.|.||||..+-
T Consensus        13 ikVKv~~~~D~~--~~~l~~~it~~dL~~kI~~rf~-----~--------------------~~~~lkY~Dedgd~v~i~   65 (85)
T d1ip9a_          13 TKIKFYYKDDIF--ALMLKGDTTYKELRSKIAPRID-----T--------------------DNFKLQTKLFDGSGEEIK   65 (85)
T ss_dssp             EEEEECBTTCCE--EEEECSCCCHHHHHHHHHHHHT-----S--------------------SCEEEEECCSSSCCSCCC
T ss_pred             EEEEEEECCcEE--EEEeCCCCCHHHHHHHHHHHhC-----C--------------------CceEEEEEcCCCCEEEEe
Confidence            679999988844  4445556789999999999996     1                    137899999999998776


Q ss_pred             Cc
Q 023395          254 DV  255 (283)
Q Consensus       254 DV  255 (283)
                      +.
T Consensus        66 sD   67 (85)
T d1ip9a_          66 TD   67 (85)
T ss_dssp             SH
T ss_pred             CH
Confidence            43

>d1wmhb_ d.15.2.2 (B:) Partitioning defective-6 homolog alpha, PAR-6 alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Partitioning defective-6 homolog alpha, PAR-6 alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.08  E-value=1.3  Score=32.57  Aligned_cols=52  Identities=15%  Similarity=0.240  Sum_probs=41.3

Q ss_pred             eeecCCCcChHHHHHHHHHHhccCCcccccCCCcchhhhhhhhhcCCCCceEEEEEeCCCCeEEccCcChHHHHHHh
Q 023395          188 KVDLNAHASYESLAQTLEEMFFASTPAINSIGGEKDLATKAFKLLDGLSEFVLTYEDKEGDWMLVGDVPWRYATIIL  264 (283)
Q Consensus       188 KVDL~~~~sY~eL~~aLe~MF~~~~~~~~~~~g~~~~~~~~~~L~D~~seyvltYEDkEGDwMLVGDVPWemFv~sV  264 (283)
                      .+|.....+|++.+.-|+.|-.     +.                  .-+++|.|.|.+||.+-+-..  +.|...+
T Consensus        17 sl~r~~~~~fe~F~~Lle~~H~-----l~------------------~~~f~i~Y~D~hgDLLPINND--dNf~kA~   68 (82)
T d1wmhb_          17 ALPRASVSGFQEFSRLLRAVHQ-----IP------------------GLDVLLGYTDAHGDLLPLTND--DSLHRAL   68 (82)
T ss_dssp             EEEGGGCCCHHHHHHHHHHHTT-----CT------------------TCCCEEEEECTTSCEEECCSH--HHHHHHT
T ss_pred             eeccccccCHHHHHHHHHHHcC-----CC------------------CCcEEEEEecCCCCcccccCc--hHHHHHH
Confidence            5777888999999999999986     32                  247999999999999988654  5565554