Citrus Sinensis ID: 028954

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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-
Protein Sequence
MATSNGGFLHTDPATPPNLLPPWLSNSSSNIKPPSPSVTLSLSPSTVAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGCRPRL
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
matsnggflhtdpatppnllppwlsnsssnikppspsvtlslspstvaaapllipwlqpergsdntlvlgnmpphgsvpicgenLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGCRPRL
Flexible Loop (DISEMBL)
matsnggflhtdpatpPNLLPPWLSNSSSNIKPPSPSVTLSLSPSTVAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQlesekacqrrdkmEEIEAKVkalgdeqratlDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKfleqmgcrprl
Low Complexity Region (SEG)
MATSNGGFLHTDPATppnllppwlsnsssnikppspsvtlslspstvAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGCRPRL
Disordered region (IsUnstruct)
**********************************************VAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQ****************************************************************LRLTKF**********
Disordered Region (DISOPRED)
*********HTDPATPPNLLP**************************************************************NLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRV************************************IEAE************************A*HLRLTKFLEQMGCRP**
Disordered Region (DISEMBL)
MATSNGGFLHTDPATPPNLLPPWLSNSS**************SPSTVAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGCRPRL
Disordered Region (DISPRO)
*****************NL*****************SVTLSLSPSTVAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGC****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATSNGGFLHTDPATPPNLLPPWLSNSSSNIKPPSPSVTLSLSPSTVAAAPLLIPWLQPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIxxxxxxxxxxxxxxxxxxxxxLAEQWSAKHLRLTKFLEQMGCRPRL
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	201	2.2.26 [Sep-21-2011]
O80931	367	Transcription factor AS1	yes	no	0.965	0.528	0.625	1e-60
Q94IB1	342	Protein rough sheath 2 ho	yes	no	0.567	0.333	0.678	3e-40
Q9S7B2	370	Protein rough sheath 2 OS	N/A	no	0.621	0.337	0.551	2e-29

>sp|O80931|AS1_ARATH Transcription factor AS1 OS=Arabidopsis thaliana GN=AS1 PE=1 SV=1

 Score =  232 bits (591), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 130/208 (62%), Positives = 163/208 (78%), Gaps = 14/208 (6%)

Query: 3   TSNGGFLHTDPAT-PPN-LLPPWL--SNSSSNIKPPSPSVTLSLSPSTVAAAPLLIP--W 56
            SNGGFLH++    PPN ++PPWL  SN+ +N+    PSVTL+LSPSTVAAA    P  W
Sbjct: 158 NSNGGFLHSEQQVQPPNPVIPPWLATSNNGNNVVARPPSVTLTLSPSTVAAAAPQPPIPW 217

Query: 57  LQ---PERGSDN--TLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEA 111
           LQ   PER  +    LVLG+M P  S     E++ +SEL+ECCREL+EGHRAWA HKKEA
Sbjct: 218 LQQQQPERAENGPGGLVLGSMMP--SCSGSSESVFLSELVECCRELEEGHRAWADHKKEA 275

Query: 112 AWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAE 171
           AWRLRR+ELQLESEK C++R+KMEEIEAK+KAL +EQ+  +++IE EYREQ+ GLR+DAE
Sbjct: 276 AWRLRRLELQLESEKTCRQREKMEEIEAKMKALREEQKNAMEKIEGEYREQLVGLRRDAE 335

Query: 172 AKEQKLAEQWSAKHLRLTKFLE-QMGCR 198
           AK+QKLA+QW+++H+RLTKFLE QMGCR
Sbjct: 336 AKDQKLADQWTSRHIRLTKFLEQQMGCR 363

Transcription factor required for normal cell differentiation. Positively regulates LATERAL ORGAN BOUNDARIES (LOB) within the shoot apex, and the class III HD-ZIP genes REV, PHB, and PHV. Interacts directly with ASYMMETRIC LEAVES 2 (LBD6/AS2) to repress the knox homeobox genes BP/KNAT1, KNAT2, and KNAT6 and the abaxial determinants ARF3/ETT, KAN2 and YAB5. May act in parallel with the RDR6-SGS3-AGO7 pathway, an endogenous RNA silencing pathway, to regulate the leaf morphogenesis.
Arabidopsis thaliana (taxid: 3702)

>sp|Q94IB1|RS2_ORYSJ Protein rough sheath 2 homolog OS=Oryza sativa subsp. japonica GN=RS2 PE=2 SV=1

 Score =  164 bits (416), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 78/115 (67%), Positives = 104/115 (90%), Gaps = 1/115 (0%)

Query: 85  LLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKAL 144
           ++V+ELMECCRE++EG RAWAAH+KEAAWR++RVE+QLE+E+AC+RR+  EE EAK++AL
Sbjct: 209 VVVAELMECCREMEEGQRAWAAHRKEAAWRMKRVEMQLETERACRRREATEEFEAKMRAL 268

Query: 145 GDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLTKFLEQM-GCR 198
            +EQ A ++R+EAEYRE++AGLR+DAEAKEQK+AEQW+AKH RL KFL+Q+  CR
Sbjct: 269 REEQAAAVERVEAEYREKMAGLRRDAEAKEQKMAEQWAAKHARLAKFLDQVAACR 323

Transcription factor required for normal cell differentiation. May interact with other proteins to repress the knox homeobox genes.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9S7B2|RS2_MAIZE Protein rough sheath 2 OS=Zea mays GN=RS2 PE=1 SV=1

 Score =  129 bits (323), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 70/127 (55%), Positives = 96/127 (75%), Gaps = 2/127 (1%)

Query: 70  GNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQ 129
           G   P G   + G+ L  +EL ECCREL+EG RAWAAH++EAAWRL+RVE QLE E+  +
Sbjct: 232 GGAAPPGMAVVDGQAL--AELAECCRELEEGRRAWAAHRREAAWRLKRVEQQLEMEREMR 289

Query: 130 RRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLRLT 189
           RR+  EE EAK++ +  EQ A  +R+E ++RE++A LR+DA+ KE+K+AEQW+AKH R+ 
Sbjct: 290 RREVWEEFEAKMRTMRLEQAAAAERVERDHREKVAELRRDAQVKEEKMAEQWAAKHARVA 349

Query: 190 KFLEQMG 196
           KF+EQMG
Sbjct: 350 KFVEQMG 356

Transcription factor required for normal cell differentiation. Interacts directly with asymmetric leaves 2 (AS2) to repress the knox homeobox genes.

Zea mays (taxid: 4577)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	201
71041106	353	MYB91 [Malus x domestica]	0.990	0.563	0.740	4e-82
302398955	353	MYB domain class transcription factor [M	0.990	0.563	0.740	8e-82
224090689	369	predicted protein [Populus trichocarpa]	0.995	0.542	0.728	4e-81
262410511	357	myb family transcription factor [Castane	0.995	0.560	0.770	1e-80
225440368	358	PREDICTED: transcription factor AS1 [Vit	0.995	0.558	0.776	2e-79
255585187	349	asymmetric leaves1 and rough sheath, put	0.980	0.564	0.732	2e-76
9972157	359	MYB-related transcription factor PHAN1 [	0.980	0.548	0.715	4e-74
45504723	363	phantastica [Nicotiana tabacum]	1.0	0.553	0.727	1e-73
344176312	361	phantastica [Nicotiana benthamiana]	1.0	0.556	0.719	9e-73
168831388	358	phantastica [Corytoplectus speciosus]	0.980	0.550	0.704	4e-72

>gi|71041106|gb|AAZ20441.1| MYB91 [Malus x domestica]

 Score =  309 bits (792), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 151/204 (74%), Positives = 180/204 (88%), Gaps = 5/204 (2%)

Query: 1   MATSNGGFLHTDPATP-PNLLPPWLSNS--SSNIKPPSPSVTLSLSPSTVAAAPLLIPWL 57
           MATSNG +LHT+ ++P P +LPPWLSNS  S N++PPSPSVTLSLSP+   + P  IPWL
Sbjct: 146 MATSNGAYLHTETSSPAPTILPPWLSNSNVSPNVRPPSPSVTLSLSPTVAPSPP--IPWL 203

Query: 58  QPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRR 117
           Q +RGSD + V+GN+P HG VP CGENL++SEL+EC REL+E HRAWAAHKKEA+WRLRR
Sbjct: 204 QQDRGSDGSFVVGNLPHHGVVPACGENLVISELVECSRELEEMHRAWAAHKKEASWRLRR 263

Query: 118 VELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKL 177
           VELQL+SEKAC+RR+KMEEIEAKVKAL +EQ+A LDRIEAEYREQ+AGLR+DAEAKEQKL
Sbjct: 264 VELQLDSEKACRRREKMEEIEAKVKALREEQKAALDRIEAEYREQLAGLRRDAEAKEQKL 323

Query: 178 AEQWSAKHLRLTKFLEQMGCRPRL 201
           AEQW+AKHLRL++FLEQMG RPR+
Sbjct: 324 AEQWAAKHLRLSQFLEQMGGRPRI 347

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302398955|gb|ADL36772.1| MYB domain class transcription factor [Malus x domestica]

 Score =  308 bits (789), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 151/204 (74%), Positives = 180/204 (88%), Gaps = 5/204 (2%)

Query: 1   MATSNGGFLHTDPATP-PNLLPPWLSNS--SSNIKPPSPSVTLSLSPSTVAAAPLLIPWL 57
           MATSNG +LHT+ ++P P +LPPWLSNS  S N++PPSPSVTLSLSP+   + P  IPWL
Sbjct: 146 MATSNGAYLHTETSSPAPTILPPWLSNSNVSPNVRPPSPSVTLSLSPTVAPSPP--IPWL 203

Query: 58  QPERGSDNTLVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLRR 117
           Q +RGSD + V+GN+P HG VP CGENL++SEL+EC REL+E HRAWAAHKKEA+WRLRR
Sbjct: 204 QQDRGSDGSFVVGNLPHHGVVPACGENLVISELVECSRELEEMHRAWAAHKKEASWRLRR 263

Query: 118 VELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKL 177
           VELQL+SEKAC+RR+KMEEIEAKVKAL +EQ+A LDRIEAEYREQ+AGLR+DAEAKEQKL
Sbjct: 264 VELQLDSEKACRRREKMEEIEAKVKALREEQKAALDRIEAEYREQLAGLRRDAEAKEQKL 323

Query: 178 AEQWSAKHLRLTKFLEQMGCRPRL 201
           AEQW+AKHLRL++FLEQMG RPR+
Sbjct: 324 AEQWAAKHLRLSQFLEQMGGRPRI 347

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224090689|ref|XP_002309060.1| predicted protein [Populus trichocarpa] gi|222855036|gb|EEE92583.1| predicted protein [Populus trichocarpa]

 Score =  306 bits (783), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 158/217 (72%), Positives = 187/217 (86%), Gaps = 17/217 (7%)

Query: 1   MATSNGGFLHTDP------------ATP-PNLLPPWLSNS--SSNIKPPSPSVTLSLSPS 45
           MATSNG FLH DP            +TP P +LPPWLSNS  +S ++PPSPSVTLSLSPS
Sbjct: 148 MATSNGTFLHPDPHPHPHPPPHPHPSTPAPTMLPPWLSNSNSTSTVRPPSPSVTLSLSPS 207

Query: 46  TVAAAPLLIPWLQPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAW 104
           TVAA+P  IPWLQPERG +NT LVLGN+PPHG VP+CGE+ L+SEL++CCREL+EG RAW
Sbjct: 208 TVAASPP-IPWLQPERGPENTPLVLGNLPPHGIVPVCGESFLMSELVDCCRELEEGRRAW 266

Query: 105 AAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIA 164
           AAHKKEAAWRLRRVELQLESEK+C+RR+KMEEIE+K+K+L +E++A+LDRIEAEYREQ+ 
Sbjct: 267 AAHKKEAAWRLRRVELQLESEKSCRRREKMEEIESKIKSLREEEKASLDRIEAEYREQLT 326

Query: 165 GLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMGCRPRL 201
           GLR+DAE KEQKL++QW+AKHLRLTKFLEQM CRPRL
Sbjct: 327 GLRRDAETKEQKLSDQWTAKHLRLTKFLEQMSCRPRL 363

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|262410511|gb|ACY66803.1| myb family transcription factor [Castanea mollissima]

 Score =  304 bits (779), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 158/205 (77%), Positives = 180/205 (87%), Gaps = 5/205 (2%)

Query: 1   MATSNGGFLHTDPATPPNLLPP-WLSNS--SSNIKPPSPSVTLSLSPSTVAAAPLLIPWL 57
           MATSNGGFLH+DP  P   L P WLSNS  +S ++PPSPSVTLSLSPSTVAA P  IPWL
Sbjct: 148 MATSNGGFLHSDPPGPAPALLPPWLSNSNGTSTVRPPSPSVTLSLSPSTVAAPPP-IPWL 206

Query: 58  QPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLR 116
           QP+RG DN  LV GN+ P GSVP CGE++L+SEL+ECCR+L+EGH AWAAHKKEAAWRL+
Sbjct: 207 QPDRGPDNNPLVFGNLQPQGSVPGCGESMLISELVECCRDLEEGHHAWAAHKKEAAWRLK 266

Query: 117 RVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQK 176
           RVELQLESEKAC+RR+KMEEIEAKVKAL +EQ+  LDRIEAEYREQ+ GLR+DAEAKEQK
Sbjct: 267 RVELQLESEKACRRREKMEEIEAKVKALREEQKVALDRIEAEYREQLVGLRRDAEAKEQK 326

Query: 177 LAEQWSAKHLRLTKFLEQMGCRPRL 201
           LAEQW++KHLRL+KFLEQMGCRPRL
Sbjct: 327 LAEQWTSKHLRLSKFLEQMGCRPRL 351

Source: Castanea mollissima

Species: Castanea mollissima

Genus: Castanea

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225440368|ref|XP_002266427.1| PREDICTED: transcription factor AS1 [Vitis vinifera]

 Score =  300 bits (769), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 160/206 (77%), Positives = 179/206 (86%), Gaps = 6/206 (2%)

Query: 1   MATSNGGFLHTDPATPPNLLPPWL----SNSSSNIKPPSPSVTLSLSPSTVAAAPLLIPW 56
           MATSNG FLH DP  PP           SN +S ++PPSPSVTLSL PSTVA +P  IPW
Sbjct: 148 MATSNGNFLHPDPPAPPPPTLLPPWLSNSNCTSTVRPPSPSVTLSLCPSTVATSPT-IPW 206

Query: 57  LQPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRL 115
           LQPERG D T LVLGN+PPHG+VP  GENLL+SEL+ECCREL+EGHRAWAAHKKEAAWRL
Sbjct: 207 LQPERGPDATPLVLGNLPPHGAVPTSGENLLISELVECCRELEEGHRAWAAHKKEAAWRL 266

Query: 116 RRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQ 175
           RRVELQLESEKAC+RR+KMEEIE+KVKAL +EQ+ATLDRIEAEYREQ+AGLR+DAE+KEQ
Sbjct: 267 RRVELQLESEKACRRREKMEEIESKVKALREEQKATLDRIEAEYREQLAGLRRDAESKEQ 326

Query: 176 KLAEQWSAKHLRLTKFLEQMGCRPRL 201
           KLAEQWSAKHLRLT+F+EQMGCRPRL
Sbjct: 327 KLAEQWSAKHLRLTRFIEQMGCRPRL 352

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255585187|ref|XP_002533297.1| asymmetric leaves1 and rough sheath, putative [Ricinus communis] gi|223526881|gb|EEF29091.1| asymmetric leaves1 and rough sheath, putative [Ricinus communis]

 Score =  290 bits (743), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 148/202 (73%), Positives = 176/202 (87%), Gaps = 5/202 (2%)

Query: 1   MATSNGGFLHTDPATPPNL-LPPWLSNSSS--NIKPPSPSVTLSLSPSTVAAAPLLIPWL 57
           MATSNGGFLHTDP  P    LPPWLS SSS   ++PPSPSVTLSLS S VAA P  IPWL
Sbjct: 148 MATSNGGFLHTDPPAPAQTSLPPWLSTSSSISAVRPPSPSVTLSLSSSAVAAPPP-IPWL 206

Query: 58  QPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLR 116
           Q E   DNT LVL ++PPHGSVP CGENL+VSEL++CCR+L+EG+RAWAAHKKEAAWRLR
Sbjct: 207 QTEGLLDNTPLVLSSLPPHGSVPSCGENLVVSELVDCCRQLEEGYRAWAAHKKEAAWRLR 266

Query: 117 RVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQK 176
           RV+LQLESEK+C++R+KMEEIE+K+KAL +E++A+LDRIEAEYREQ+A LR+DAEAKEQK
Sbjct: 267 RVQLQLESEKSCRKREKMEEIESKIKALREEEKASLDRIEAEYREQLAELRRDAEAKEQK 326

Query: 177 LAEQWSAKHLRLTKFLEQMGCR 198
           LAEQW++K LRL+KFLEQ+G +
Sbjct: 327 LAEQWASKQLRLSKFLEQIGVQ 348

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9972157|gb|AAG10600.1|AF299140_1 MYB-related transcription factor PHAN1 [Pisum sativum]

 Score =  283 bits (723), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 146/204 (71%), Positives = 169/204 (82%), Gaps = 7/204 (3%)

Query: 1   MATSNGGFLHTDP-ATPPNLLPPWLSNSSSN--IKPPSPSVTLSLSPSTVAAAPLLIPWL 57
           MA SN  +LHTD  A  P LLP WLSNS++   ++P SPSVTLSLSPSTVAA P   PW+
Sbjct: 152 MAASNSSYLHTDAQAATPGLLPSWLSNSNNTAPVRPNSPSVTLSLSPSTVAAPP---PWM 208

Query: 58  QPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRLR 116
           QP RG DN  LVLGN+ PHG+V   GEN+++SEL++CC+EL+EGH A AAHKKEAAWRL 
Sbjct: 209 QPVRGPDNAPLVLGNVAPHGAVLSYGENMVMSELIDCCKELEEGHHALAAHKKEAAWRLS 268

Query: 117 RVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQK 176
           RVELQLESEKA +RR+KMEEIEAK+KAL +EQ   LDRIE EYREQ+AGLR+DAEAKEQK
Sbjct: 269 RVELQLESEKASRRREKMEEIEAKIKALREEQAVALDRIEGEYREQLAGLRRDAEAKEQK 328

Query: 177 LAEQWSAKHLRLTKFLEQMGCRPR 200
           LAEQW+AKHLRLTKFLEQ+GCR R
Sbjct: 329 LAEQWAAKHLRLTKFLEQVGCRSR 352

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|45504723|gb|AAS66905.1| phantastica [Nicotiana tabacum]

 Score =  281 bits (719), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 152/209 (72%), Positives = 175/209 (83%), Gaps = 8/209 (3%)

Query: 1   MATSNGGFLHTD-PA-TPPNLLPPWLSNSS--SNIKPPSPSVTLSLSPSTVAAAPLL--- 53
           MATSNGGFLH D PA +P  LLPPWLSNS+  S ++ PSPSVTLSLSPSTV   P     
Sbjct: 148 MATSNGGFLHADAPAPSPQTLLPPWLSNSTATSTVRSPSPSVTLSLSPSTVPPTPTPTPG 207

Query: 54  IPWLQPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAA 112
           IPWLQ +RG +N  L+L + P HG  P CGEN  V+EL+ECC+EL EGHRAWAAHKKEAA
Sbjct: 208 IPWLQTDRGPENAPLILSSFPHHGVAPPCGENPFVTELVECCKELDEGHRAWAAHKKEAA 267

Query: 113 WRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEA 172
           WRLRRVELQLESEK C+ R+KMEEIEAK+KAL +EQ+ATLDRIEAEY+EQ+AGLR+DAEA
Sbjct: 268 WRLRRVELQLESEKICKVREKMEEIEAKMKALREEQKATLDRIEAEYKEQLAGLRRDAEA 327

Query: 173 KEQKLAEQWSAKHLRLTKFLEQMGCRPRL 201
           KEQKLAEQW++KHLRL+KFLEQMGC+ RL
Sbjct: 328 KEQKLAEQWASKHLRLSKFLEQMGCQSRL 356

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|344176312|emb|CCC21110.1| phantastica [Nicotiana benthamiana]

 Score =  278 bits (711), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 149/207 (71%), Positives = 171/207 (82%), Gaps = 6/207 (2%)

Query: 1   MATSNGGFLHTD--PATPPNLLPPWLSNSS--SNIKPPSPSVTLSLSPSTVAAAPLL-IP 55
           MATSNGGFLHTD  P +P  LLPPWLSNS+  S ++ PSPSVTLSLSPSTV   P   IP
Sbjct: 148 MATSNGGFLHTDAPPPSPQTLLPPWLSNSTATSTVRSPSPSVTLSLSPSTVPPTPTPGIP 207

Query: 56  WLQPERGSDNT-LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWR 114
           WLQ +RG +N  L+L + P HG  P CGEN  ++EL ECC+EL EGHRAWAAHKKEAAWR
Sbjct: 208 WLQTDRGPENAPLILSSFPHHGVAPPCGENPFITELAECCKELDEGHRAWAAHKKEAAWR 267

Query: 115 LRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKE 174
           LRRVELQLESEK  + R+KMEEIEAK+KAL +EQ+ATLDR EAEY+EQ+AGLR+DAEAKE
Sbjct: 268 LRRVELQLESEKTNKVREKMEEIEAKMKALREEQKATLDRFEAEYKEQLAGLRRDAEAKE 327

Query: 175 QKLAEQWSAKHLRLTKFLEQMGCRPRL 201
           QKLAEQW++KHLRL KFLEQMGC+ RL
Sbjct: 328 QKLAEQWASKHLRLIKFLEQMGCQSRL 354

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168831388|gb|ACA34975.1| phantastica [Corytoplectus speciosus]

 Score =  276 bits (705), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 143/203 (70%), Positives = 168/203 (82%), Gaps = 6/203 (2%)

Query: 1   MATSNGGFLHTDPATP--PNLLPPWLSNSS--SNIKPPSPSVTLSLSPSTVAAAPLLIPW 56
           MATSNGGFLHTDP  P  P++LPPWL  SS  + ++PPSPSVTLSLSPSTV  AP  IPW
Sbjct: 148 MATSNGGFLHTDPPAPSAPSVLPPWLVGSSMATTVRPPSPSVTLSLSPSTVTPAPA-IPW 206

Query: 57  LQPERGSDNTL-VLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKKEAAWRL 115
           LQP+R  D T   L ++P  G  P+ GEN LV EL+ECCREL+EGH AW AHKKEAAWRL
Sbjct: 207 LQPDRLPDITPPGLSSLPSLGIAPLGGENPLVLELVECCRELEEGHPAWVAHKKEAAWRL 266

Query: 116 RRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQ 175
           +RVELQL+SEK+C+RR+KME+IEAKVKAL +EQ+ +LDRIEAEYREQ+AGLR++AE KEQ
Sbjct: 267 KRVELQLDSEKSCRRREKMEDIEAKVKALREEQKTSLDRIEAEYREQLAGLRREAEVKEQ 326

Query: 176 KLAEQWSAKHLRLTKFLEQMGCR 198
           KLAEQW+ KH RLT FL+QMGCR
Sbjct: 327 KLAEQWATKHSRLTNFLKQMGCR 349

Source: Corytoplectus speciosus

Species: Corytoplectus speciosus

Genus: Corytoplectus

Family: Gesneriaceae

Order: Lamiales

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	201
TAIR|locus:2040671	367	AS1 "ASYMMETRIC LEAVES 1" [Ara	0.975	0.534	0.542	8.3e-51
UNIPROTKB|Q9S7B2	370	RS2 "Protein rough sheath 2" [	0.721	0.391	0.493	2.4e-35
UNIPROTKB|F1RZF1	298	DYX1C1 "Uncharacterized protei	0.398	0.268	0.376	0.00067

TAIR|locus:2040671 AS1 "ASYMMETRIC LEAVES 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 114/210 (54%), Positives = 141/210 (67%)

Query:     1 MATSNGGFLHTD-----PATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAAAPLL-I 54
             MA SNGGFLH++     P                                  AAAP   I
Sbjct:   156 MANSNGGFLHSEQQVQPPNPVIPPWLATSNNGNNVVARPPSVTLTLSPSTVAAAAPQPPI 215

Query:    55 PWLQ---PERGSDNT--LVLGNMPPHGSVPICGENLLVSELMECCRELKEGHRAWAAHKK 109
             PWLQ   PER  +    LVLG+M P  S     E++ +SEL+ECCREL+EGHRAWA HKK
Sbjct:   216 PWLQQQQPERAENGPGGLVLGSMMP--SCSGSSESVFLSELVECCRELEEGHRAWADHKK 273

Query:   110 EAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKD 169
             EAAWRLRR+ELQLESEK C++R+KMEEIEAK+KAL +EQ+  +++IE EYREQ+ GLR+D
Sbjct:   274 EAAWRLRRLELQLESEKTCRQREKMEEIEAKMKALREEQKNAMEKIEGEYREQLVGLRRD 333

Query:   170 AEAKEQKLAEQWSAKHLRLTKFLEQ-MGCR 198
             AEAK+QKLA+QW+++H+RLTKFLEQ MGCR
Sbjct:   334 AEAKDQKLADQWTSRHIRLTKFLEQQMGCR 363

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0009965 "leaf morphogenesis" evidence=IMP

GO:0008356 "asymmetric cell division" evidence=RCA;IMP

GO:0042803 "protein homodimerization activity" evidence=IPI

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

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

GO:0009739 "response to gibberellin stimulus" evidence=IEP

GO:0009751 "response to salicylic acid stimulus" evidence=IEP

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

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0010338 "leaf formation" evidence=IGI

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

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

GO:0045088 "regulation of innate immune response" evidence=IMP

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

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

GO:0000793 "condensed chromosome" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0009615 "response to virus" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q9S7B2 RS2 "Protein rough sheath 2" [Zea mays (taxid:4577)]

 Score = 382 (139.5 bits), Expect = 2.4e-35, P = 2.4e-35
 Identities = 75/152 (49%), Positives = 105/152 (69%)

Query:    51 PLLIPWLQPERGSDNTLVLGNMPP--HGSVPICG----ENLLVSELMECCRELKEGHRAW 104
             P   PW+ P+R + +    G   P  HG     G    +   ++EL ECCREL+EG RAW
Sbjct:   206 PAPAPWM-PDRAAADAAPYGFPSPSQHGGAAPPGMAVVDGQALAELAECCRELEEGRRAW 264

Query:   105 AAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIA 164
             AAH++EAAWRL+RVE QLE E+  +RR+  EE EAK++ +  EQ A  +R+E ++RE++A
Sbjct:   265 AAHRREAAWRLKRVEQQLEMEREMRRREVWEEFEAKMRTMRLEQAAAAERVERDHREKVA 324

Query:   165 GLRKDAEAKEQKLAEQWSAKHLRLTKFLEQMG 196
              LR+DA+ KE+K+AEQW+AKH R+ KF+EQMG
Sbjct:   325 ELRRDAQVKEEKMAEQWAAKHARVAKFVEQMG 356

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1RZF1 DYX1C1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 105 (42.0 bits), Expect = 0.00067, P = 0.00067
 Identities = 35/93 (37%), Positives = 54/93 (58%)

Query:   107 HKKEAA-WR---LRRVE---LQLESEKAC-QRRDKMEE-IEAKVKALGDEQRATLD---R 154
             HKKEAA W    L  V+   +Q   EK+  Q ++K +E +EAKV A  ++Q+ TL+   +
Sbjct:    76 HKKEAAMWETLSLSGVDKEMMQRIREKSILQAQEKAKEAVEAKVAARREDQKYTLNVMMK 135

Query:   155 IEAEYREQIAGLRKDAEAKEQKLAEQWSAKHLR 187
             IE E R++I G++++   K  K  E W  +H R
Sbjct:   136 IEEEERKKIEGMKENERIKATKELEAWK-EHQR 167


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.131   0.396    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      201       169   0.00082  108 3  11 22  0.41    32
                                                     31  0.47    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  608 (65 KB)
  Total size of DFA:  169 KB (2099 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  21.79u 0.11s 21.90t   Elapsed:  00:00:01
  Total cpu time:  21.79u 0.11s 21.90t   Elapsed:  00:00:01
  Start:  Mon May 20 20:40:45 2013   End:  Mon May 20 20:40:46 2013

GO:0061136 "regulation of proteasomal protein catabolic process" evidence=IEA

GO:0033146 "regulation of intracellular estrogen receptor signaling pathway" evidence=IEA

GO:0030331 "estrogen receptor binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	201
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	0.003
TIGR01541	332	TIGR01541, tape_meas_lam_C, phage tail tape measur	0.004

>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 29/93 (31%), Positives = 43/93 (46%), Gaps = 21/93 (22%)

Query: 107 HKKEAAWRLRRVELQLESEKACQRRD----KMEEIEAKVKALG-------------DEQR 149
            + E   + RR ELQ    +  QR +    KME ++ K + L              DE+ 
Sbjct: 65  AELERELKERRNELQRLERRLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKE 124

Query: 150 ATLDRIEAEYR---EQIAGLRKDAEAKEQKLAE 179
             L+ + AE R   E+I+GL ++ EAKE  L E
Sbjct: 125 EELEELIAEQREELERISGLTQE-EAKEILLEE 156

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|233459 TIGR01541, tape_meas_lam_C, phage tail tape measure protein, lambda family

 Score = 37.1 bits (86), Expect = 0.004
 Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 19/110 (17%)

Query: 106 AHKKEAAWRLRRVELQLESE--KACQRRDKMEEIEAKVKA----------LGDEQRATLD 153
             + +    L ++E  LE    KA +   K+ E  A ++A          LGD+QR  LD
Sbjct: 27  QSRSDEIIALIKLEKLLEEAERKALEALKKLAEATASIRAQNKRQLDRFGLGDKQRERLD 86

Query: 154 ---RIEAEYREQIAGLRKDAEAK----EQKLAEQWSAKHLRLTKFLEQMG 196
              +I+  +R+Q   L K   AK         EQ +A    L + L ++ 
Sbjct: 87  ARLQIDRTFRKQQRDLNKAMTAKGLAGSDLYKEQLAAIKAALNEALAELH 136

This model represents a relatively well-conserved region near the C-terminus of the tape measure protein of a lambda and related phage. This protein, which controls phage tail length, is typically about 1000 residues in length. Both low-complexity sequence and insertion/deletion events appear common in this family. Mutational studies suggest a ruler or template role in the determination of phage tail length. Similar behavior is attributed to proteins from distantly related or unrelated families in other phage [Mobile and extrachromosomal element functions, Prophage functions]. Length = 332

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	201
PF04696	131	Pinin_SDK_memA: pinin/SDK/memA/ protein conserved	95.09
PF08514	118	STAG: STAG domain ; InterPro: IPR013721 STAG domai	88.89
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	85.44
PF10186	302	Atg14: UV radiation resistance protein and autopha	83.75
KOG3756	340	consensus Pinin (desmosome-associated protein) [Cy	81.65
TIGR01541	332	tape_meas_lam_C phage tail tape measure protein, l	80.14
PF13801	125	Metal_resist: Heavy-metal resistance; PDB: 3EPV_C	80.09

>PF04696 Pinin_SDK_memA: pinin/SDK/memA/ protein conserved region; InterPro: IPR006786 This conserved region is located adjacent and C-terminal to a N-terminal pinin/SKD domain IPR006787 from INTERPRO

Probab=95.09  E-value=0.22  Score=39.88  Aligned_cols=30  Identities=30%  Similarity=0.655  Sum_probs=22.6

Q ss_pred             hhhhh-hHHHHHHHHHHHHHHHHHHHHHHHH
Q 028954          164 AGLRK-DAEAKEQKLAEQWSAKHLRLTKFLE  193 (201)
Q Consensus       164 a~LrR-DAE~KEqKlaEqW~~Kh~rL~kfle  193 (201)
                      ..||+ +....+.++.+.|..++..|++||-
T Consensus        71 ~elr~~e~~~~~~~~~~~~~~~~~~l~~fi~  101 (131)
T PF04696_consen   71 RELRRLEQKKEEERLMEIWHEHYLALANFIR  101 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            34443 4555667788999999999999975

Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque []. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].

>PF08514 STAG: STAG domain ; InterPro: IPR013721 STAG domain proteins are subunits of cohesin complex - a protein complex required for sister chromatid cohesion in eukaryotes

Probab=88.89  E-value=0.93  Score=35.64  Aligned_cols=44  Identities=34%  Similarity=0.625  Sum_probs=35.2

Q ss_pred             hhHHHHHHHHHHHHHhhHHHHhhhhhhhhhhhHHHHHHHhHHHhhHHH--HHHHHHHHHH
Q 028954           85 LLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRD--KMEEIEAKVK  142 (201)
Q Consensus        85 ~~~~eLvecCrELEEG~raw~aHKKEAaWRL~RvElQLESEKa~rRRE--KmEEiEaKik  142 (201)
                      .+|..|++.+.+|.+              .+.....||+.||..+++.  ++|+++.+|+
T Consensus        72 ~i~t~L~~v~~~l~~--------------~~~~~~rQl~aE~~k~~~~~~r~~~l~~~i~  117 (118)
T PF08514_consen   72 KIMTSLCDVAKSLSE--------------ELEKTQRQLEAEKKKKRKNKSRLEELEQKIK  117 (118)
T ss_pred             HHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHhcccccHHHHHHHHHHhc
Confidence            577889999998887              3556778999999876654  6899999886

The STAG domain is present in Schizosaccharomyces pombe (Fission yeast) mitotic cohesin Psc3, and the meiosis specific cohesin Rec11. Many organisms express a meiosis-specific STAG protein, for example, mice and humans have a meiosis specific variant called STAG3, although budding yeast does not have a meiosis specific version [].

>smart00502 BBC B-Box C-terminal domain

Probab=85.44  E-value=12  Score=27.12  Aligned_cols=54  Identities=17%  Similarity=0.282  Sum_probs=43.6

Q ss_pred             HHhhHHHHH-HHHHHHHHhhhHHHhhhhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 028954          126 KACQRRDKM-EEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLAE  179 (201)
Q Consensus       126 Ka~rRREKm-EEiEaKikaLreEq~a~l~riE~eYrEqla~LrRDAE~KEqKlaE  179 (201)
                      ++...|+.+ .+|+.=+..|.+++...|++|+.++++.+..|..--+.-++.+..
T Consensus        36 ~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~   90 (127)
T smart00502       36 NAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEK   90 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555 778999999999999999999999999999988777776666654

Coiled coil region C-terminal to (some) B-Box domains

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=83.75  E-value=22  Score=29.77  Aligned_cols=16  Identities=31%  Similarity=0.329  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHhhHHH
Q 028954           89 ELMECCRELKEGHRAW  104 (201)
Q Consensus        89 eLvecCrELEEG~raw  104 (201)
                      ++-.+-.++-+.+..+
T Consensus        24 ~~~~~l~~~~~~~~~l   39 (302)
T PF10186_consen   24 ELRSELQQLKEENEEL   39 (302)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>KOG3756 consensus Pinin (desmosome-associated protein) [Cytoskeleton]

Probab=81.65  E-value=15  Score=34.77  Aligned_cols=82  Identities=27%  Similarity=0.453  Sum_probs=48.1

Q ss_pred             hhHHHHHHHHHHHHHhhHHHHhhhhhhhhhhhHHHHHHHhHHHhhHHHHHHHHHHHHHhhhHHHhhhhhhHHH----HHH
Q 028954           85 LLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEA----EYR  160 (201)
Q Consensus        85 ~~~~eLvecCrELEEG~raw~aHKKEAaWRL~RvElQLESEKa~rRREKmEEiEaKikaLreEq~a~l~riE~----eYr  160 (201)
                      .+||+|-.+|+|=                           .++..|-.|-.|||-|+--=++++...|..-+.    +-|
T Consensus       147 ~LlGTL~KFkqE~---------------------------kr~t~rq~KraEieqKlEeq~~eE~e~l~~qe~~l~~~rr  199 (340)
T KOG3756|consen  147 LLLGTLQKFKQES---------------------------KRATERQVKRAEIEQKLEEQAEEEREQLEKQERELLEERR  199 (340)
T ss_pred             HHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678888888753                           333334444455555555444444444433322    234


Q ss_pred             HHHhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHH
Q 028954          161 EQIAGLRKDAE-AKEQKLAEQWSAKHLRLTKFLE  193 (201)
Q Consensus       161 Eqla~LrRDAE-~KEqKlaEqW~~Kh~rL~kfle  193 (201)
                      .+.-.||+=+- .-++|+.++|..-..++..|+.
T Consensus       200 ~r~~ElR~l~~kka~~q~~e~w~~~~kk~s~~IR  233 (340)
T KOG3756|consen  200 ARQTELRLLEQKKALAQLFEEWNEHNKKISNYIR  233 (340)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            44455554333 3367899999998888888764

>TIGR01541 tape_meas_lam_C phage tail tape measure protein, lambda family

Probab=80.14  E-value=36  Score=31.37  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=21.3

Q ss_pred             HHHhhhhhhHHHHHHHHHhhhhhhHHH
Q 028954          146 DEQRATLDRIEAEYREQIAGLRKDAEA  172 (201)
Q Consensus       146 eEq~a~l~riE~eYrEqla~LrRDAE~  172 (201)
                      .+....+-.|+.+|.+|+..|+++.+.
T Consensus        82 ~~r~~~~~~i~~~~~~q~~~l~~~~~~  108 (332)
T TIGR01541        82 RERLDARLQIDRTFRKQQRDLNKAMTA  108 (332)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            345566778999999999999998553

This model represents a relatively well-conserved region near the C-terminus of the tape measure protein of a lambda and related phage. This protein, which controls phage tail length, is typically about 1000 residues in length. Both low-complexity sequence and insertion/deletion events appear common in this family. Mutational studies suggest a ruler or template role in the determination of phage tail length. Similar behavior is attributed to proteins from distantly related or unrelated families in other phage.

>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H

Probab=80.09  E-value=4.4  Score=28.84  Aligned_cols=62  Identities=29%  Similarity=0.326  Sum_probs=33.2

Q ss_pred             hhhhHHHHHHHhHHHhhHHHHHHHHHHHHHhhhHHHhhhhhhHHHHHHHHHhhhhhhHHHHHHHHH
Q 028954          113 WRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEAKEQKLA  178 (201)
Q Consensus       113 WRL~RvElQLESEKa~rRREKmEEiEaKikaLreEq~a~l~riE~eYrEqla~LrRDAE~KEqKla  178 (201)
                      +....-.++|-.|...+-|+-+++.-.+++.+|.+-.+    ...++++.+..=.=|.+.=++-+.
T Consensus        33 ~~~~~~~l~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~----~r~~l~~ll~~~~~D~~~i~a~~~   94 (125)
T PF13801_consen   33 HPMLADMLNLTPEQQAKLRALMDEFRQEMRALRQELRA----ARQELRALLAAPPPDEAAIEALLE   94 (125)
T ss_dssp             HHHHHHHS-TTHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHCCSSS-HHHHHHHHH
T ss_pred             chhhhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34444556777777777777777777777777655433    333444444443334443333333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	201
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	4e-04

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 39.0 bits (90), Expect = 4e-04
 Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 9/68 (13%)

Query: 113 WRLRRVELQLESEKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIAGLRKDAEA 172
           WR  +        K  Q  D     +   +   ++ +  L+       EQ+   + +   
Sbjct: 90  WREEQ-------RKRLQELD--AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140

Query: 173 KEQKLAEQ 180
            ++   +Q
Sbjct: 141 ADKAFYQQ 148

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	201
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	91.19
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	89.64
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	89.48
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	85.58

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=91.19  E-value=2.2  Score=37.34  Aligned_cols=70  Identities=16%  Similarity=0.084  Sum_probs=35.2

Q ss_pred             HHHHHhhHHHHhhhhhhhhhhhHHHHHHHh----------HHHhhHHHHHHHHHHHHHhhhHHHhhhhhhHHHHHHHHHh
Q 028954           95 RELKEGHRAWAAHKKEAAWRLRRVELQLES----------EKACQRRDKMEEIEAKVKALGDEQRATLDRIEAEYREQIA  164 (201)
Q Consensus        95 rELEEG~raw~aHKKEAaWRL~RvElQLES----------EKa~rRREKmEEiEaKikaLreEq~a~l~riE~eYrEqla  164 (201)
                      ++||++.-.......|..=++....+|+|.          +--.++..++|++.+++...|+.    +.+....++++..
T Consensus       370 ~~le~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~  445 (487)
T 3oja_A          370 KALDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVEQQSVQNN----AIRDWDMYQHKET  445 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSSCCCCCSSCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHhhchhhhcccccccCcHHHHHHHHHHHHHHHHHHHHHhhc----chhhhhhhhhHHH
Confidence            466665555555555555555555555553          11334455555555554444433    4444445555555


Q ss_pred             hhhh
Q 028954          165 GLRK  168 (201)
Q Consensus       165 ~LrR  168 (201)
                      .|++
T Consensus       446 ~~~~  449 (487)
T 3oja_A          446 QLAE  449 (487)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5555

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=89.64  E-value=1.7  Score=38.02  Aligned_cols=21  Identities=24%  Similarity=0.265  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHh
Q 028954          175 QKLAEQWSAKHLRLTKFLEQM  195 (201)
Q Consensus       175 qKlaEqW~~Kh~rL~kfleq~  195 (201)
                      |...+++..+..|+.|.++.+
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~  461 (487)
T 3oja_A          441 QHKETQLAEENARLKKLNGEA  461 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHhhhhhhhhhhh
Confidence            344455556666666666554

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=89.48  E-value=3.2  Score=34.28  Aligned_cols=90  Identities=21%  Similarity=0.314  Sum_probs=70.4

Q ss_pred             hhHHHHHHHHHHHHHhhHHHHhhhhhhhhhhhHHHHHHHhHHHhhHHHHH--HHHHHHHHhhhHHHhhhhh---hHHHHH
Q 028954           85 LLVSELMECCRELKEGHRAWAAHKKEAAWRLRRVELQLESEKACQRRDKM--EEIEAKVKALGDEQRATLD---RIEAEY  159 (201)
Q Consensus        85 ~~~~eLvecCrELEEG~raw~aHKKEAaWRL~RvElQLESEKa~rRREKm--EEiEaKikaLreEq~a~l~---riE~eY  159 (201)
                      ..++.+-.-|+||.+--...-.||..--=.+-.|--||+.||..|.+..-  -|.+.+|.+|.+|=...-.   +++.|-
T Consensus        41 k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~  120 (168)
T 3o0z_A           41 KSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGER  120 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35678888999999999999999999999999999999999988877543  6889999999988655444   444443


Q ss_pred             H---HHHhhhhhhHHHHH
Q 028954          160 R---EQIAGLRKDAEAKE  174 (201)
Q Consensus       160 r---Eqla~LrRDAE~KE  174 (201)
                      |   |.|+.|.+....-|
T Consensus       121 r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A          121 KEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhh
Confidence            3   56666666655555

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=85.58  E-value=8.1  Score=34.27  Aligned_cols=27  Identities=30%  Similarity=0.415  Sum_probs=11.6

Q ss_pred             hhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 028954          151 TLDRIEAEYREQIAGLRKDAEAKEQKL  177 (201)
Q Consensus       151 ~l~riE~eYrEqla~LrRDAE~KEqKl  177 (201)
                      .|++.-.+-++++..|++|.+...+|+
T Consensus       548 ~le~~~~~~~~~~~~l~~e~~~~~~~~  574 (597)
T 3oja_B          548 ALEKQLDNKRAKQAELRQETSLKRQKV  574 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            333333344444444444444444433

---

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

No hit with probability above 80.00