Citrus Sinensis ID: 026312

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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
Protein Sequence
MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLEWDK
Secondary Structure (PSIPRED)
ccccccHHHccHHHHHHHHHcccccccccccccccEEEEccccccccccccccccccEEEEccEEEEccEEEEEEEccccEEEcccccEEEEEEcEEEEEEEEccccccccccccEEEEEcHHHHHHHHHcccccccccccccccccccccccEEEEEEEEcccccEEEEEEEEcccccccEEEEEEcHHHHHHHHHHHHHHHccccHHHHHHccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHccccccccccccccccHccccHHHcccccccccccccccccccccccccEEccEEEEcccEEEEEEEEccEEEEccccEEEEEEccEEEEEEEEEcccccEcHHHcEEEEEcHHHHHHHHcccccccEEEEEccccccccccccEEEEEEEEcccccEEEEEEEEccccccccEEEEccHHHHHHHHHHHHHHHHHHHcHHHHHccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mmklsrslLSSRSQLSEKLLAGEANYVRDGLKSHVLISqagmsttghdvsakgslggrifapyyvykgkaafsvdpvlptfmkldsgdlkvkrkGVILLTfapaigerkydwakkqhfalsptevgslltmgprdsseffhdpamlssnagqmRKSLSIKANADGFFISLNVANNilktnerfvvpvSTAEFAVMKTACSfalphlmgwdrltnqlprsstdssssskvdqqflnlewdk
Flexible Loop (DISEMBL)
mmklsrsllssRSQLSEKLLAGEANYVRDGLKSHVLISQAgmsttghdvsakgslGGRIFAPYYVYKGKAAFSVDPVLPTFMKLdsgdlkvkrkgVILLTfapaigerkydWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPrsstdssssskvdqqflnlewdk
Low Complexity Region (SEG)
MMklsrsllssrsqlsekllAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRsstdsssssKVDQQFLNLEWDK
Disordered region (IsUnstruct)
**********************EANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVG*L******************************IKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLT***************************
Disordered Region (DISOPRED)
**********************************************************IFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFF********************ANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRL****************************
Disordered Region (DISEMBL)
************SQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ****************QFLNLEWDK
Disordered Region (DISPRO)
**************************VRD******LI******************GGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLP***********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLEWDK
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	240	2.2.26 [Sep-21-2011]
D9J034	238	Single-stranded DNA-bindi	N/A	no	0.979	0.987	0.621	1e-77
Q8VYF7	238	Single-stranded DNA-bindi	yes	no	0.975	0.983	0.598	1e-70
B2LXS7	266	Single-stranded DNA-bindi	N/A	no	0.8	0.721	0.416	2e-41
Q9LL85	274	Single-stranded DNA-bindi	N/A	no	0.779	0.682	0.415	3e-40
Q9M9S3	263	Single-stranded DNA-bindi	no	no	0.754	0.688	0.421	5e-40
Q66GR6	268	Single-stranded DNA-bindi	no	no	0.662	0.593	0.450	2e-38

>sp|D9J034|WHY2_SOLTU Single-stranded DNA-bindig protein WHY2, mitochondrial OS=Solanum tuberosum GN=WHY2 PE=1 SV=1

 Score =  289 bits (739), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 151/243 (62%), Positives = 184/243 (75%), Gaps = 8/243 (3%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAK-GSLGGRI 59
           M+K+SR LL  R+QL  K L GE   V+  +  H + + AG ST   +V A  G   GR+
Sbjct: 1   MLKVSR-LLHPRNQLLHKKLPGEC--VKGSIWQHAINTFAGFSTVRQNVVADAGKREGRV 57

Query: 60  FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFA 119
           FAPY V+KGKAA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW K+Q FA
Sbjct: 58  FAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFA 117

Query: 120 LSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNIL 177
           LS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL+V NN L
Sbjct: 118 LSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNL 177

Query: 178 KTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLE 237
           KTN+RF VPV+TAEFAVM+TA SFALPH+MGWDR TN+   S + S S SKV  Q +  E
Sbjct: 178 KTNDRFTVPVTTAEFAVMRTAFSFALPHIMGWDRFTNR--PSESISQSPSKVVPQLMEAE 235

Query: 238 WDK 240
           WD+
Sbjct: 236 WDR 238

Single-stranded DNA-binding protein that may be involved in the maintenance of mitochondrial genome stability by preventing break-induced DNA rearrangements.
Solanum tuberosum (taxid: 4113)

>sp|Q8VYF7|WHY2_ARATH Single-stranded DNA-binding protein WHY2, mitochondrial OS=Arabidopsis thaliana GN=WHY2 PE=2 SV=1

 Score =  266 bits (679), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 146/244 (59%), Positives = 183/244 (75%), Gaps = 10/244 (4%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIF 60
           MMK +RSLLS RS   +     EA+ +R G  S    S  G    G D +AK S  GR+F
Sbjct: 1   MMKQARSLLS-RSLCDQSKSLFEASTLR-GFASWSNSSTPGRGFPGKD-AAKPS--GRLF 55

Query: 61  APYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFAL 120
           APY ++KGKAA SV+PVLP+F ++DSG+L++ R+G +++TF PAIGERKYDW KKQ FAL
Sbjct: 56  APYSIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFAL 115

Query: 121 SPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNILK 178
           SPTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL+V N+ILK
Sbjct: 116 SPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISLSVNNSILK 175

Query: 179 TNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSS--KVDQQFLNL 236
           TN+ FVVPV+ AEFAVMKTA SFALPH+MGW+RLT  +   +  S + S  K + Q L L
Sbjct: 176 TNDYFVVPVTKAEFAVMKTAFSFALPHIMGWNRLTGHVNTEALPSRNVSHLKTEPQ-LEL 234

Query: 237 EWDK 240
           EWDK
Sbjct: 235 EWDK 238

Single-stranded DNA-binding protein that associates with mitochondrial DNA and may play a role in the regulation of the gene expression machinery. Seems also to be required to prevent break-induced DNA rearrangements in the mitochondrial genome. Can bind to melt double-stranded DNA in vivo.

Arabidopsis thaliana (taxid: 3702)

>sp|B2LXS7|WHY1_MAIZE Single-stranded DNA-bindig protein WHY1, chloroplastic OS=Zea mays GN=WHY1 PE=2 SV=1

 Score =  169 bits (427), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 82/197 (41%), Positives = 117/197 (59%), Gaps = 5/197 (2%)

Query: 46  GHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAI 105
           G+     G+  GR+F  Y +YKGKAA S DP  P F+ LDSG  KV ++G +LL FAPA+
Sbjct: 73  GYGRPPNGAQDGRVFTSYSIYKGKAALSFDPRPPLFVPLDSGAYKVAKEGFVLLQFAPAV 132

Query: 106 GERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD- 164
             R+YDW +KQ F+LS  E+G+LLT+GP DS EFFHDP    S  G++RK L I+   D 
Sbjct: 133 ATRQYDWTRKQVFSLSVWEIGTLLTLGPTDSCEFFHDPFKGRSEEGKVRKVLKIEPTPDG 192

Query: 165 -GFFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDS 223
            G F +L+V N ++  +E   +P++  EFAV+ +  ++ +PHLMGW    + +     + 
Sbjct: 193 NGRFFNLSVQNRLINVDESIYIPITKGEFAVIVSTFNYIIPHLMGWSTFVSSI---KPEE 249

Query: 224 SSSSKVDQQFLNLEWDK 240
           S      Q     EW +
Sbjct: 250 SRPYSRPQSTSEYEWRR 266

Single-stranded DNA and RNA binding protein that maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. Functions in RNA metabolism and is involved in the maturation of the atpF and 23S ribosomal RNAs.

Zea mays (taxid: 4577)

>sp|Q9LL85|WHY1_SOLTU Single-stranded DNA-bindig protein WHY1, chloroplastic OS=Solanum tuberosum GN=WHY1 PE=1 SV=1

 Score =  165 bits (417), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 79/190 (41%), Positives = 124/190 (65%), Gaps = 3/190 (1%)

Query: 53  GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
           G+   ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+YDW
Sbjct: 86  GASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDW 145

Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
           ++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   D  G F +L
Sbjct: 146 SRKQVFSLSVTEIGSIISLGAKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNL 205

Query: 171 NVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVD 230
           +V N ++  +E   +PV+ AEFAV+ +A +F +P+L+GW    N   +    S S++   
Sbjct: 206 SVQNKLINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAVNSF-KPEDASRSNNANP 264

Query: 231 QQFLNLEWDK 240
           +    LEW++
Sbjct: 265 RSGAELEWNR 274

Single-stranded DNA-binding protein that acts as a transcriptional activator of the pathogenesis-related gene PR-10a. Upon elicitation, binds a 30bp promoter sequence known as elicitor element response (ERE) and is required for PR-10a expression.

Solanum tuberosum (taxid: 4113)

>sp|Q9M9S3|WHY1_ARATH Single-stranded DNA-binding protein WHY1, chloroplastic OS=Arabidopsis thaliana GN=WHY1 PE=1 SV=1

 Score =  164 bits (415), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 81/192 (42%), Positives = 122/192 (63%), Gaps = 11/192 (5%)

Query: 55  LGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAK 114
           L  R +  + +YKGKAA +VDP  P F+ LDSG  K+ + G +LL FAP+ G R+YDW+K
Sbjct: 77  LPARFYVGHSIYKGKAALTVDPRAPEFVALDSGAFKLSKDGFLLLQFAPSAGVRQYDWSK 136

Query: 115 KQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNV 172
           KQ F+LS TE+G+L+++GPR+S EFFHDP    S+ G++RK L ++   D  G F +L+V
Sbjct: 137 KQVFSLSVTEIGTLVSLGPRESCEFFHDPFKGKSDEGKVRKVLKVEPLPDGSGHFFNLSV 196

Query: 173 ANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQ 232
            N ++  +E   +P++ AEFAV+ +A +F LP+L+GW    N     S     +S+V+  
Sbjct: 197 QNKLVNVDESIYIPITRAEFAVLISAFNFVLPYLIGWHAFAN-----SIKPEETSRVNNA 251

Query: 233 FLN----LEWDK 240
             N     EW++
Sbjct: 252 SPNYGGDYEWNR 263

Single-stranded DNA-binding protein that functions in both chloroplasts and nucleus. In chloroplasts, maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. In nucleus, modulates telomere length homeostasis by inhibiting the action of the telomerase at the extreme termini of chromosomes. Is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Is required for full salicylic acid-dependent plant disease resistance responses. Can bind double-stranded DNA in vivo.

Arabidopsis thaliana (taxid: 3702)

>sp|Q66GR6|WHY3_ARATH Single-stranded DNA-binding protein WHY3, chloroplastic OS=Arabidopsis thaliana GN=WHY3 PE=1 SV=1

 Score =  159 bits (402), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 73/162 (45%), Positives = 112/162 (69%), Gaps = 3/162 (1%)

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           R +  + +YKGKAA +++P  P F+ L+SG  K+ ++G +LL FAPA G R+YDW++KQ 
Sbjct: 84  RFYVGHSIYKGKAALTIEPRAPEFVALESGAFKLTKEGFLLLQFAPAAGVRQYDWSRKQV 143

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDP-AMLSSNAGQMRKSLSIKANAD--GFFISLNVAN 174
           F+LS TE+G+L+++GPR+S EFFHDP     S+ G++RK L ++   D  G F +L+V N
Sbjct: 144 FSLSVTEIGNLVSLGPRESCEFFHDPFKGKGSDEGKVRKVLKVEPLPDGSGRFFNLSVQN 203

Query: 175 NILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQL 216
            +L  +E   +P++ AEFAV+ +A +F LPHL+GW    N +
Sbjct: 204 KLLNVDESVYIPITKAEFAVLISAFNFVLPHLIGWSAFANSI 245

Single-stranded DNA-binding protein that functions in both chloroplasts and nucleus. In chloroplasts, maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. In the nucleus, is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Can bind double-stranded DNA in vivo.

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	240
118484514	229	unknown [Populus trichocarpa]	0.945	0.991	0.623	8e-77
426021772	238	RecName: Full=Single-stranded DNA-bindig	0.979	0.987	0.621	8e-76
357512363	226	hypothetical protein MTR_7g116270 [Medic	0.920	0.977	0.605	3e-72
356573153	235	PREDICTED: uncharacterized protein LOC10	0.966	0.987	0.596	2e-71
388498336	235	unknown [Lotus japonicus]	0.783	0.8	0.682	5e-71
255637711	235	unknown [Glycine max]	0.966	0.987	0.592	1e-70
224070977	183	predicted protein [Populus trichocarpa]	0.754	0.989	0.697	5e-70
449447529	241	PREDICTED: single-stranded DNA-bindig pr	0.983	0.979	0.551	5e-69
22330568	238	protein WHIRLY 2 [Arabidopsis thaliana]	0.975	0.983	0.598	7e-69
12323827	237	unknown protein; 79476-81015 [Arabidopsi	0.970	0.983	0.596	3e-68

>gi|118484514|gb|ABK94132.1| unknown [Populus trichocarpa]

 Score =  292 bits (747), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 151/242 (62%), Positives = 182/242 (75%), Gaps = 15/242 (6%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIF 60
           MMKLSR L  +R+ +      G+   VRDG   H L  QA +ST G     K S+  R+F
Sbjct: 1   MMKLSRFLNFNRNAV------GKPTDVRDGSALHALTFQASISTGG-----KSSIQDRVF 49

Query: 61  APYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFAL 120
           APY V+KGKAA SV+PVLPTF K  SG+L+V R+G ++LTF PAIGERKYD+ K+Q FAL
Sbjct: 50  APYSVFKGKAALSVEPVLPTFSKFGSGNLRVDRRGSMMLTFLPAIGERKYDYEKRQKFAL 109

Query: 121 SPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNILK 178
           S TEVGSL++ GP+DS EFFHDP+MLSSNAGQ+RK+LSIK +AD  G+F+SL+V NNILK
Sbjct: 110 SATEVGSLISTGPKDSCEFFHDPSMLSSNAGQVRKNLSIKPHADGSGYFVSLSVVNNILK 169

Query: 179 TNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLEW 238
           T ERF VPV+TAEF V+KTACSFALPH+MGWDRLT  LP   T +S  SKVD Q  +LEW
Sbjct: 170 TTERFTVPVTTAEFTVLKTACSFALPHIMGWDRLTTPLP--GTLASKLSKVDPQMPDLEW 227

Query: 239 DK 240
           DK
Sbjct: 228 DK 229

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|426021772|sp|D9J034.1|WHY2_SOLTU RecName: Full=Single-stranded DNA-bindig protein WHY2, mitochondrial; AltName: Full=Protein WHIRLY 2; Short=StWHY2; Flags: Precursor gi|298359665|gb|ADI77438.1| Why2 protein [Solanum tuberosum]

 Score =  289 bits (739), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 151/243 (62%), Positives = 184/243 (75%), Gaps = 8/243 (3%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAK-GSLGGRI 59
           M+K+SR LL  R+QL  K L GE   V+  +  H + + AG ST   +V A  G   GR+
Sbjct: 1   MLKVSR-LLHPRNQLLHKKLPGEC--VKGSIWQHAINTFAGFSTVRQNVVADAGKREGRV 57

Query: 60  FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFA 119
           FAPY V+KGKAA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW K+Q FA
Sbjct: 58  FAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFA 117

Query: 120 LSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNIL 177
           LS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL+V NN L
Sbjct: 118 LSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNL 177

Query: 178 KTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLE 237
           KTN+RF VPV+TAEFAVM+TA SFALPH+MGWDR TN+   S + S S SKV  Q +  E
Sbjct: 178 KTNDRFTVPVTTAEFAVMRTAFSFALPHIMGWDRFTNR--PSESISQSPSKVVPQLMEAE 235

Query: 238 WDK 240
           WD+
Sbjct: 236 WDR 238

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512363|ref|XP_003626470.1| hypothetical protein MTR_7g116270 [Medicago truncatula] gi|355501485|gb|AES82688.1| hypothetical protein MTR_7g116270 [Medicago truncatula] gi|388497124|gb|AFK36628.1| unknown [Medicago truncatula]

 Score =  277 bits (708), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 146/241 (60%), Positives = 176/241 (73%), Gaps = 20/241 (8%)

Query: 1   MMKLSRSLLSS-RSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRI 59
           M+K SR L SS R+ L E L      Y RD        S A    T ++ SAKG    RI
Sbjct: 5   MLKFSRMLHSSSRNHLLEVL------YARD-------FSTA----TNNNYSAKGYTSDRI 47

Query: 60  FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFA 119
           FAPY VYKGKAAFS+ P LPTF KLDSG L V R G I+++F PAIGERKYDW K+Q FA
Sbjct: 48  FAPYSVYKGKAAFSLSPCLPTFTKLDSGALVVDRHGSIMMSFMPAIGERKYDWEKRQIFA 107

Query: 120 LSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNILKT 179
           LS TEVGSL+ +GP+DS EFFHDP+M SSNAGQ+RKSLSIK +++G+F+SL+V N++L T
Sbjct: 108 LSATEVGSLIAIGPQDSCEFFHDPSMKSSNAGQVRKSLSIKPHSNGYFVSLSVVNSVLNT 167

Query: 180 NERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLEWD 239
            + F VPV+TAEFAVMKTACSFALPH+MGWDRLTNQ  +SS   S   K++ Q L+LEW+
Sbjct: 168 KDNFSVPVTTAEFAVMKTACSFALPHIMGWDRLTNQ--QSSGTVSFQPKMNSQILDLEWE 225

Query: 240 K 240
           K
Sbjct: 226 K 226

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573153|ref|XP_003554728.1| PREDICTED: uncharacterized protein LOC100817863 [Glycine max]

 Score =  275 bits (702), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 145/243 (59%), Positives = 179/243 (73%), Gaps = 11/243 (4%)

Query: 1   MMKLSRSL---LSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGG 57
           M KLSR L    +SR +L E +L+     V D L SH     AG+ST  ++ +AKG    
Sbjct: 1   MFKLSRMLPLTSTSRHRLLE-VLSSRKVEVGDRL-SH----SAGISTATNNYAAKGYASD 54

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           RIFAPY VYKGKAAFS+ P LPTF KL+SG + V R+G I++TF  +IGERKYDW K+Q 
Sbjct: 55  RIFAPYTVYKGKAAFSLIPCLPTFTKLNSGTVVVDRRGSIMMTFMHSIGERKYDWEKRQR 114

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNIL 177
           FALS TEVGSL+TMG +DS +FFHDP+MLSSNAGQ+RKSLSIK +A+G+F+SL V NN+L
Sbjct: 115 FALSATEVGSLITMGAQDSCDFFHDPSMLSSNAGQVRKSLSIKPHANGYFVSLTVVNNLL 174

Query: 178 KTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLE 237
            TN+ F VPV+TAEFAVMKTACSFALPH+MGWD++TNQ  R   D     K D +  +LE
Sbjct: 175 NTNDYFSVPVTTAEFAVMKTACSFALPHIMGWDQITNQQSRGIDD--LQVKGDSKVSDLE 232

Query: 238 WDK 240
           W+K
Sbjct: 233 WEK 235

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498336|gb|AFK37234.1| unknown [Lotus japonicus]

 Score =  273 bits (698), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 133/195 (68%), Positives = 153/195 (78%), Gaps = 7/195 (3%)

Query: 51  AKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKY 110
           AKG    R+FAPYYVYKGKAA S+ PVLPTF KLDSG L V+R+G I++ F PAIGERKY
Sbjct: 43  AKGYTTDRVFAPYYVYKGKAAMSLSPVLPTFTKLDSGALVVERRGSIMMVFTPAIGERKY 102

Query: 111 DWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIK--ANADGFFI 168
           DW K+Q FALS TEVGSL+ MGP+DS EFFHDP+M SSNAGQ+RKSLSIK  AN+ G+F+
Sbjct: 103 DWEKRQKFALSATEVGSLIAMGPQDSCEFFHDPSMSSSNAGQVRKSLSIKPHANSSGYFV 162

Query: 169 SLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ---LPRSSTDSSS 225
           SL V NN+L   E F VPV+TAEFAVMKTACSFALPH+MGWDRLTNQ   LP  +     
Sbjct: 163 SLTVVNNLLNAKENFNVPVTTAEFAVMKTACSFALPHIMGWDRLTNQQSSLPGGTV--GL 220

Query: 226 SSKVDQQFLNLEWDK 240
            SKVD+   +LEWDK
Sbjct: 221 QSKVDKPVFDLEWDK 235

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637711|gb|ACU19178.1| unknown [Glycine max]

 Score =  272 bits (695), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 144/243 (59%), Positives = 179/243 (73%), Gaps = 11/243 (4%)

Query: 1   MMKLSRSL---LSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGG 57
           M KLSR L    +SR +L E +L+     V D L SH     AG+ST  ++ +AKG    
Sbjct: 1   MFKLSRMLPLTSTSRHRLLE-VLSSRKVEVGDRL-SH----SAGISTVTNNYAAKGYASD 54

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           RIFAPY VYKGKAAFS+ P LPTF KL+SG + V R+G I++TF  +IGERKYDW K+Q 
Sbjct: 55  RIFAPYTVYKGKAAFSLIPCLPTFTKLNSGTVVVDRRGSIMMTFMHSIGERKYDWEKRQR 114

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLNVANNIL 177
           FALS TEVGSL+TMG +DS +FFHDP+MLSSNAGQ+RKSLSIK +A+G+F+SL V +N+L
Sbjct: 115 FALSATEVGSLITMGAQDSCDFFHDPSMLSSNAGQVRKSLSIKPHANGYFVSLTVVDNLL 174

Query: 178 KTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLNLE 237
            TN+ F VPV+TAEFAVMKTACSFALPH+MGWD++TNQ  R   D     K D +  +LE
Sbjct: 175 NTNDYFSVPVTTAEFAVMKTACSFALPHIMGWDQITNQQSRGIDD--LQVKGDPKVSDLE 232

Query: 238 WDK 240
           W+K
Sbjct: 233 WEK 235

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224070977|ref|XP_002303313.1| predicted protein [Populus trichocarpa] gi|222840745|gb|EEE78292.1| predicted protein [Populus trichocarpa]

 Score =  270 bits (689), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 129/185 (69%), Positives = 154/185 (83%), Gaps = 4/185 (2%)

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           R+FAPY V+KGKAA SV+PVLPTF K  SG+L+V R+G ++LTF PAIGERKYD+ K+Q 
Sbjct: 1   RVFAPYSVFKGKAALSVEPVLPTFSKFGSGNLRVDRRGSMMLTFLPAIGERKYDYEKRQK 60

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANN 175
           FALS TEVGSL++ GP+DS EFFHDP+MLSSNAGQ+RK+LSIK +AD  G+F+SL+V NN
Sbjct: 61  FALSATEVGSLISTGPKDSCEFFHDPSMLSSNAGQVRKNLSIKPHADGSGYFVSLSVVNN 120

Query: 176 ILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSSKVDQQFLN 235
           ILKT ERF VPV+TAEF V+KTACSFALPH+MGWDRLT  LP   T +S  SKVD Q  +
Sbjct: 121 ILKTTERFTVPVTTAEFTVLKTACSFALPHIMGWDRLTTPLP--GTLASKLSKVDPQMPD 178

Query: 236 LEWDK 240
           LEWDK
Sbjct: 179 LEWDK 183

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447529|ref|XP_004141520.1| PREDICTED: single-stranded DNA-bindig protein WHY2, mitochondrial-like [Cucumis sativus]

 Score =  266 bits (680), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 135/245 (55%), Positives = 178/245 (72%), Gaps = 9/245 (3%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVS--AKGSLGGR 58
           MMKL+R  L SR+QL E+++  +A YV   L SH   S AG+S +  + +     + GGR
Sbjct: 1   MMKLTR--LFSRNQLFEQIVWKKAGYVGHPLGSHPFSSNAGISDSTQNFTRTVTKNAGGR 58

Query: 59  IFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHF 118
           +FA Y+VYKGKAA S++P +PTF K++SG+  + R+G I+LTFAPA+GERKYDW +KQ F
Sbjct: 59  VFASYHVYKGKAALSMEPCMPTFTKVESGNFIMDRRGSIMLTFAPAVGERKYDWTRKQLF 118

Query: 119 ALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNI 176
           ALS TE+GSL+++GPRDS EFFHDP MLSS AGQ+RKSL+IKA+ D  G+F SLNV N  
Sbjct: 119 ALSATEIGSLISLGPRDSCEFFHDPGMLSSTAGQVRKSLAIKAHTDGNGYFFSLNVVNKP 178

Query: 177 LKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSS-SSSKVDQQFLN 235
             TN+   VP +T EF+VMKTACSFALP L+GWDR+TN  P     S     K+D++ L+
Sbjct: 179 QNTNDYLSVPFTTGEFSVMKTACSFALPSLLGWDRVTN--PNLGVGSVFQPKKIDREALS 236

Query: 236 LEWDK 240
           LEW++
Sbjct: 237 LEWER 241

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22330568|ref|NP_177282.2| protein WHIRLY 2 [Arabidopsis thaliana] gi|75161474|sp|Q8VYF7.1|WHY2_ARATH RecName: Full=Single-stranded DNA-binding protein WHY2, mitochondrial; AltName: Full=Protein WHIRLY 2; Short=AtWHY2; Flags: Precursor gi|18175814|gb|AAL59932.1| unknown protein [Arabidopsis thaliana] gi|21689867|gb|AAM67494.1| unknown protein [Arabidopsis thaliana] gi|225898076|dbj|BAH30370.1| hypothetical protein [Arabidopsis thaliana] gi|332197060|gb|AEE35181.1| protein WHIRLY 2 [Arabidopsis thaliana]

 Score =  266 bits (679), Expect = 7e-69,   Method: Compositional matrix adjust.
 Identities = 146/244 (59%), Positives = 183/244 (75%), Gaps = 10/244 (4%)

Query: 1   MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIF 60
           MMK +RSLLS RS   +     EA+ +R G  S    S  G    G D +AK S  GR+F
Sbjct: 1   MMKQARSLLS-RSLCDQSKSLFEASTLR-GFASWSNSSTPGRGFPGKD-AAKPS--GRLF 55

Query: 61  APYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFAL 120
           APY ++KGKAA SV+PVLP+F ++DSG+L++ R+G +++TF PAIGERKYDW KKQ FAL
Sbjct: 56  APYSIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFAL 115

Query: 121 SPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNILK 178
           SPTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL+V N+ILK
Sbjct: 116 SPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISLSVNNSILK 175

Query: 179 TNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSS--KVDQQFLNL 236
           TN+ FVVPV+ AEFAVMKTA SFALPH+MGW+RLT  +   +  S + S  K + Q L L
Sbjct: 176 TNDYFVVPVTKAEFAVMKTAFSFALPHIMGWNRLTGHVNTEALPSRNVSHLKTEPQ-LEL 234

Query: 237 EWDK 240
           EWDK
Sbjct: 235 EWDK 238

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12323827|gb|AAG51881.1|AC016162_2 unknown protein; 79476-81015 [Arabidopsis thaliana]

 Score =  264 bits (674), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 145/243 (59%), Positives = 182/243 (74%), Gaps = 10/243 (4%)

Query: 2   MKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFA 61
           MK +RSLLS RS   +     EA+ +R G  S    S  G    G D +AK S  GR+FA
Sbjct: 1   MKQARSLLS-RSLCDQSKSLFEASTLR-GFASWSNSSTPGRGFPGKD-AAKPS--GRLFA 55

Query: 62  PYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALS 121
           PY ++KGKAA SV+PVLP+F ++DSG+L++ R+G +++TF PAIGERKYDW KKQ FALS
Sbjct: 56  PYSIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFALS 115

Query: 122 PTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNILKT 179
           PTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL+V N+ILKT
Sbjct: 116 PTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISLSVNNSILKT 175

Query: 180 NERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSS--KVDQQFLNLE 237
           N+ FVVPV+ AEFAVMKTA SFALPH+MGW+RLT  +   +  S + S  K + Q L LE
Sbjct: 176 NDYFVVPVTKAEFAVMKTAFSFALPHIMGWNRLTGHVNTEALPSRNVSHLKTEPQ-LELE 234

Query: 238 WDK 240
           WDK
Sbjct: 235 WDK 237

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	240
UNIPROTKB|D9J034	238	WHY2 "Single-stranded DNA-bind	0.883	0.890	0.622	7.4e-66
TAIR|locus:2032293	238	ATWHY2 "WHIRLY 2" [Arabidopsis	0.887	0.894	0.603	6.9e-63
UNIPROTKB|B2LXS7	266	WHY1 "Single-stranded DNA-bind	0.712	0.642	0.450	9.9e-39
UNIPROTKB|Q9LL85	274	WHY1 "Single-stranded DNA-bind	0.783	0.686	0.403	8.9e-38
TAIR|locus:2012542	263	WHY1 "WHIRLY 1" [Arabidopsis t	0.687	0.627	0.458	8.9e-38
TAIR|locus:2058822	268	WHY3 "AT2G02740" [Arabidopsis	0.662	0.593	0.450	1.3e-36

UNIPROTKB|D9J034 WHY2 "Single-stranded DNA-bindig protein WHY2, mitochondrial" [Solanum tuberosum (taxid:4113)]

 Score = 670 (240.9 bits), Expect = 7.4e-66, P = 7.4e-66
 Identities = 135/217 (62%), Positives = 164/217 (75%)

Query:    27 VRDGLKSHVLISQAGMSTTGHDVSAK-GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLD 85
             V+  +  H + + AG ST   +V A  G   GR+FAPY V+KGKAA S +P LPTF +LD
Sbjct:    24 VKGSIWQHAINTFAGFSTVRQNVVADAGKREGRVFAPYSVFKGKAALSAEPRLPTFNRLD 83

Query:    86 SGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAM 145
             SG +K+ R+GVI+LTF P++GERKYDW K+Q FALS TEVGSL++MG RDSSEFFHDP+M
Sbjct:    84 SGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFALSATEVGSLISMGTRDSSEFFHDPSM 143

Query:   146 LSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFAL 203
             LSSNAGQ+RKSLSIK NADG  +FISL+V NN LKTN+RF VPV+TAEFAVM+TA SFAL
Sbjct:   144 LSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNLKTNDRFTVPVTTAEFAVMRTAFSFAL 203

Query:   204 PHLMGWDRLTNQLPRXXXXXXXXXKVDQQFLNLEWDK 240
             PH+MGWDR TN+ P          KV  Q +  EWD+
Sbjct:   204 PHIMGWDRFTNR-P-SESISQSPSKVVPQLMEAEWDR 238

GO:0003677 "DNA binding" evidence=IDA

TAIR|locus:2032293 ATWHY2 "WHIRLY 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 642 (231.1 bits), Expect = 6.9e-63, P = 6.9e-63
 Identities = 134/222 (60%), Positives = 167/222 (75%)

Query:    23 EANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFM 82
             EA+ +R G  S    S  G    G D +AK S  GR+FAPY ++KGKAA SV+PVLP+F 
Sbjct:    22 EASTLR-GFASWSNSSTPGRGFPGKD-AAKPS--GRLFAPYSIFKGKAALSVEPVLPSFT 77

Query:    83 KLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHD 142
             ++DSG+L++ R+G +++TF PAIGERKYDW KKQ FALSPTEVGSL++MG +DSSEFFHD
Sbjct:    78 EIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFALSPTEVGSLISMGSKDSSEFFHD 137

Query:   143 PAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACS 200
             P+M SSNAGQ+RKSLS+K +ADG  +FISL+V N+ILKTN+ FVVPV+ AEFAVMKTA S
Sbjct:   138 PSMKSSNAGQVRKSLSVKPHADGSGYFISLSVNNSILKTNDYFVVPVTKAEFAVMKTAFS 197

Query:   201 FALPHLMGWDRLTNQLPRXX--XXXXXXXKVDQQFLNLEWDK 240
             FALPH+MGW+RLT  +             K + Q L LEWDK
Sbjct:   198 FALPHIMGWNRLTGHVNTEALPSRNVSHLKTEPQ-LELEWDK 238

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

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

GO:0009507 "chloroplast" evidence=ISM

GO:0006952 "defense response" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006281 "DNA repair" evidence=IMP

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

GO:0009086 "methionine biosynthetic process" evidence=RCA

UNIPROTKB|B2LXS7 WHY1 "Single-stranded DNA-bindig protein WHY1, chloroplastic" [Zea mays (taxid:4577)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 78/173 (45%), Positives = 111/173 (64%)

Query:    46 GHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAI 105
             G+     G+  GR+F  Y +YKGKAA S DP  P F+ LDSG  KV ++G +LL FAPA+
Sbjct:    73 GYGRPPNGAQDGRVFTSYSIYKGKAALSFDPRPPLFVPLDSGAYKVAKEGFVLLQFAPAV 132

Query:   106 GERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
               R+YDW +KQ F+LS  E+G+LLT+GP DS EFFHDP    S  G++RK L I+   DG
Sbjct:   133 ATRQYDWTRKQVFSLSVWEIGTLLTLGPTDSCEFFHDPFKGRSEEGKVRKVLKIEPTPDG 192

Query:   166 F--FISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQL 216
                F +L+V N ++  +E   +P++  EFAV+ +  ++ +PHLMGW    + +
Sbjct:   193 NGRFFNLSVQNRLINVDESIYIPITKGEFAVIVSTFNYIIPHLMGWSTFVSSI 245

GO:0003677 "DNA binding" evidence=IDA

GO:0003723 "RNA binding" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0045910 "negative regulation of DNA recombination" evidence=IMP

UNIPROTKB|Q9LL85 WHY1 "Single-stranded DNA-bindig protein WHY1, chloroplastic" [Solanum tuberosum (taxid:4113)]

 Score = 405 (147.6 bits), Expect = 8.9e-38, P = 8.9e-38
 Identities = 77/191 (40%), Positives = 120/191 (62%)

Query:    52 KGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYD 111
             +G+   ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+YD
Sbjct:    85 QGASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYD 144

Query:   112 WAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFIS 169
             W++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG   F +
Sbjct:   145 WSRKQVFSLSVTEIGSIISLGAKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFN 204

Query:   170 LNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRXXXXXXXXXKV 229
             L+V N ++  +E   +PV+ AEFAV+ +A +F +P+L+GW    N               
Sbjct:   205 LSVQNKLINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAVNSFKPEDASRSNNAN- 263

Query:   230 DQQFLNLEWDK 240
              +    LEW++
Sbjct:   264 PRSGAELEWNR 274

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

GO:0043565 "sequence-specific DNA binding" evidence=IDA

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

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

TAIR|locus:2012542 WHY1 "WHIRLY 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 405 (147.6 bits), Expect = 8.9e-38, P = 8.9e-38
 Identities = 77/168 (45%), Positives = 115/168 (68%)

Query:    51 AKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKY 110
             A+G L  R +  + +YKGKAA +VDP  P F+ LDSG  K+ + G +LL FAP+ G R+Y
Sbjct:    74 AEG-LPARFYVGHSIYKGKAALTVDPRAPEFVALDSGAFKLSKDGFLLLQFAPSAGVRQY 132

Query:   111 DWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFI 168
             DW+KKQ F+LS TE+G+L+++GPR+S EFFHDP    S+ G++RK L ++   DG   F 
Sbjct:   133 DWSKKQVFSLSVTEIGTLVSLGPRESCEFFHDPFKGKSDEGKVRKVLKVEPLPDGSGHFF 192

Query:   169 SLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQL 216
             +L+V N ++  +E   +P++ AEFAV+ +A +F LP+L+GW    N +
Sbjct:   193 NLSVQNKLVNVDESIYIPITRAEFAVLISAFNFVLPYLIGWHAFANSI 240

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0006952 "defense response" evidence=TAS

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

GO:0005634 "nucleus" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0032211 "negative regulation of telomere maintenance via telomerase" evidence=IMP

GO:0042162 "telomeric DNA binding" evidence=IDA

GO:0003697 "single-stranded DNA binding" evidence=IDA

GO:0006281 "DNA repair" evidence=IMP

TAIR|locus:2058822 WHY3 "AT2G02740" [Arabidopsis thaliana (taxid:3702)]

 Score = 394 (143.8 bits), Expect = 1.3e-36, P = 1.3e-36
 Identities = 73/162 (45%), Positives = 112/162 (69%)

Query:    58 RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
             R +  + +YKGKAA +++P  P F+ L+SG  K+ ++G +LL FAPA G R+YDW++KQ 
Sbjct:    84 RFYVGHSIYKGKAALTIEPRAPEFVALESGAFKLTKEGFLLLQFAPAAGVRQYDWSRKQV 143

Query:   118 FALSPTEVGSLLTMGPRDSSEFFHDPAM-LSSNAGQMRKSLSIKANADGF--FISLNVAN 174
             F+LS TE+G+L+++GPR+S EFFHDP     S+ G++RK L ++   DG   F +L+V N
Sbjct:   144 FSLSVTEIGNLVSLGPRESCEFFHDPFKGKGSDEGKVRKVLKVEPLPDGSGRFFNLSVQN 203

Query:   175 NILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQL 216
              +L  +E   +P++ AEFAV+ +A +F LPHL+GW    N +
Sbjct:   204 KLLNVDESVYIPITKAEFAVLISAFNFVLPHLIGWSAFANSI 245


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        0.320   0.134   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      240       213   0.00084  112 3  11 22  0.50    32
                                                     31  0.49    35


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:  6
  No. of states in DFA:  598 (64 KB)
  Total size of DFA:  164 KB (2096 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:  18.24u 0.17s 18.41t   Elapsed:  00:00:01
  Total cpu time:  18.24u 0.17s 18.41t   Elapsed:  00:00:01
  Start:  Fri May 10 07:15:52 2013   End:  Fri May 10 07:15:53 2013

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

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0006952 "defense response" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0006281 "DNA repair" evidence=IMP

---

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)
Q8VYF7	WHY2_ARATH	No assigned EC number	0.5983	0.975	0.9831	yes	no
D9J034	WHY2_SOLTU	No assigned EC number	0.6213	0.9791	0.9873	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.III.1543.1 SubName- Full=Putative uncharacterized protein; (183 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	240
pfam08536	139	pfam08536, Whirly, Whirly transcription factor	1e-59

>gnl|CDD|192059 pfam08536, Whirly, Whirly transcription factor

 Score =  184 bits (468), Expect = 1e-59
 Identities = 80/136 (58%), Positives = 102/136 (75%), Gaps = 2/136 (1%)

Query: 65  VYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTE 124
           +YKGKAA  V PV PTF  LDSG+L++ R+G +LL FAPA G R+YDW KKQ F LSPTE
Sbjct: 2   IYKGKAALKVKPVRPTFTALDSGNLRIDRRGGLLLEFAPATGPRQYDWEKKQSFMLSPTE 61

Query: 125 VGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANNILKTNER 182
            G L +MG  DS EFFHDP+   SNAGQ+RK+L ++   D  G+F++L+V N+ILK N+ 
Sbjct: 62  AGELASMGSNDSCEFFHDPSAGGSNAGQVRKALKVEPMPDGSGYFVNLSVTNSILKGNDS 121

Query: 183 FVVPVSTAEFAVMKTA 198
           F VPV+ AEFAV++TA
Sbjct: 122 FSVPVTYAEFAVLRTA 137

This family contains the plant whirly transcription factors. Length = 139

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	240
PF08536	139	Whirly: Whirly transcription factor; InterPro: IPR	100.0

>PF08536 Whirly: Whirly transcription factor; InterPro: IPR013742 This is a family of plant transcription factors

Probab=100.00  E-value=9.3e-62  Score=402.57  Aligned_cols=137  Identities=59%  Similarity=1.011  Sum_probs=121.2

Q ss_pred             eEeecceeEEeeecCCceeeccCCCeEEeeeceEEEEEeecccccccccccceEEEeCchhhhhhhhcCCCCceeeeeCc
Q 026312           64 YVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDP  143 (240)
Q Consensus        64 sVYkgKAAlsv~p~~P~F~~~~sg~~~v~R~G~IlLeFAPavG~rqYDW~kKq~FsLS~tEvG~LLsl~~~~s~effHdP  143 (240)
                      +||||||||+|+|++|+|++++||+++++|+|+||||||||+|+|||||+|||+|+|||+|||+||+|+++++|||||||
T Consensus         1 sVYk~kaAl~v~p~~P~f~~~~sg~~kv~R~G~vlLefapa~g~r~YDW~kKq~FsLS~tEvG~ll~l~~~~s~effHdP   80 (139)
T PF08536_consen    1 SVYKGKAALSVRPIKPTFTSLDSGYFKVSREGSVLLEFAPAVGPRQYDWSKKQTFSLSPTEVGSLLSLGARESCEFFHDP   80 (139)
T ss_dssp             EEEESSEEEEEEEE--EEEE-TTSCEEEEC--EEEEEEEEBCSTTEB-GGG-EEEEE-HHHHHHHHT--TT--EEEEE-T
T ss_pred             CccccceeEEEEecCCccEECCCCcEEEeeccEEEEEEccccCCcccccccceEEEEcHHHhhhhhhhccCCceEEEecc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCcCccceeEEEeeCCCC--ceEEEEEeecccCCCceEEEeecHHHHHHHHHHHH
Q 026312          144 AMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACS  200 (240)
Q Consensus       144 ~~g~S~~g~v~K~Lkiep~pdG--~f~nLsV~n~~~~~~~~~~vpVt~gEf~virsl~~  200 (240)
                      +|++|++|+|+|+|+|||+|||  |||||+|+|++++++++|+||||+|||+|||++|+
T Consensus        81 ~~~~s~~G~v~K~Lkv~p~~dgsg~f~~Lsv~~~~~~~~~~~~ipVt~aEfavl~s~f~  139 (139)
T PF08536_consen   81 NMGSSNEGKVRKSLKVEPLPDGSGYFFNLSVQNKLLNGDENFSIPVTKAEFAVLRSAFN  139 (139)
T ss_dssp             TTTSTTTTSEEEEEEEEE-TTSSEEEEEEEEEECCCTEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             ccCCCCCCceEEEEEeEECCCCCceEEEEEEecccccccceEEEechHHHHHHHHHhhC
Confidence            9999999999999999999996  99999999999999999999999999999999986

; PDB: 3R9Y_A 3N1I_A 3N1K_A 3RA0_A 3N1H_A 3N1J_A 3N1L_A 3R9Z_A 1L3A_D.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	240
3n1h_A	178	Crystal Structure Of Stwhy2 Length = 178		5e-68
3r9y_A	178	Crystal Structure Of Stwhy2 K67a (Form I) Length =		3e-67
1l3a_A	227	Structure Of The Plant Transcriptional Regulator Pb		4e-40

>pdb|3N1H|A Chain A, Crystal Structure Of Stwhy2 Length = 178

Iteration: 1
 Score =  253 bits (647), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 120/165 (72%), Positives = 142/165 (86%), Gaps = 2/165 (1%)
Query: 53  GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
           G   GR+FAPY V+KGKAA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5   GKREGRVFAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64
Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
            K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL
Sbjct: 65  EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124
Query: 171 NVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ 215
           +V NN LKTN+RF VPV+TAEFAVM+TA SFALPH+MGWDR TN+
Sbjct: 125 SVVNNNLKTNDRFTVPVTTAEFAVMRTAFSFALPHIMGWDRFTNR 169

>pdb|3R9Y|A Chain A, Crystal Structure Of Stwhy2 K67a (Form I) Length = 178

Iteration: 1
 Score =  251 bits (640), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 119/165 (72%), Positives = 141/165 (85%), Gaps = 2/165 (1%)
Query: 53  GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
           G   GR+FAPY V+KG AA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5   GKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64
Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
            K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL
Sbjct: 65  EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124
Query: 171 NVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ 215
           +V NN LKTN+RF VPV+TAEFAVM+TA SFALPH+MGWDR TN+
Sbjct: 125 SVVNNNLKTNDRFTVPVTTAEFAVMRTAFSFALPHIMGWDRFTNR 169

>pdb|1L3A|A Chain A, Structure Of The Plant Transcriptional Regulator Pbf-2 Length = 227

Iteration: 1
 Score =  161 bits (407), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 73/161 (45%), Positives = 111/161 (68%), Gaps = 2/161 (1%)
Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+YDW++KQ 
Sbjct: 37  KVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQV 96
Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANN 175
           F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   D  G F +L+V N 
Sbjct: 97  FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNK 156
Query: 176 ILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQL 216
           ++  +E   +PV+ AEFAV+ +A +F +P+L+GW    N  
Sbjct: 157 LINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAVNSF 197
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	240
1l3a_A	227	PBF-2, P24: plant transcriptional regulator PBF-2;	2e-67
3r9z_A	178	WHY2 protein; stwhy2, single-stranded DNA binding	2e-67

>1l3a_A PBF-2, P24: plant transcriptional regulator PBF-2; single strand DNA binding protein, whirly, transcriptionnal activator, cyclic C4 symmetry; 2.30A {Solanum tuberosum} SCOP: d.18.1.2 Length = 227

 Score =  207 bits (526), Expect = 2e-67
 Identities = 78/192 (40%), Positives = 123/192 (64%), Gaps = 3/192 (1%)

Query: 50  SAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERK 109
             +G+   ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+
Sbjct: 29  QPQGASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQ 88

Query: 110 YDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIK--ANADGFF 167
           YDW++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   +  G F
Sbjct: 89  YDWSRKQVFSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHF 148

Query: 168 ISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQLPRSSTDSSSSS 227
            +L+V N ++  +E   +PV+ AEFAV+ +A +F +P+L+GW    N        S S++
Sbjct: 149 FNLSVQNKLINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAVNSFKPEDA-SRSNN 207

Query: 228 KVDQQFLNLEWD 239
              +    LEW+
Sbjct: 208 ANPRSGAELEWN 219

>3r9z_A WHY2 protein; stwhy2, single-stranded DNA binding protein, plant, potato, mitochondria, DNA binding protein; 1.75A {Solanum tuberosum} PDB: 3r9y_A 3ra0_A* 3n1h_A 3n1i_A* 3n1j_A* 3n1k_A* 3n1l_A* Length = 178

 Score =  205 bits (521), Expect = 2e-67
 Identities = 119/169 (70%), Positives = 143/169 (84%), Gaps = 2/169 (1%)

Query: 49  VSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGER 108
           ++  G   GR+FAPY V+KG AA S +P LPTF +LDSG +K+ R+GVI+LTF P++GER
Sbjct: 1   MADAGKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGER 60

Query: 109 KYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GF 166
           KYDW K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+
Sbjct: 61  KYDWEKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGY 120

Query: 167 FISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ 215
           FISL+V NN LKTN+RF VPV+TAEFAVM+TA SFALPH+MGWDR TN+
Sbjct: 121 FISLSVVNNNLKTNDRFTVPVTTAEFAVMRTAFSFALPHIMGWDRFTNR 169

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	240
1l3a_A	227	PBF-2, P24: plant transcriptional regulator PBF-2;	100.0
3r9z_A	178	WHY2 protein; stwhy2, single-stranded DNA binding	100.0

>1l3a_A PBF-2, P24: plant transcriptional regulator PBF-2; single strand DNA binding protein, whirly, transcriptionnal activator, cyclic C4 symmetry; 2.30A {Solanum tuberosum} SCOP: d.18.1.2

Probab=100.00  E-value=2.5e-73  Score=501.23  Aligned_cols=186  Identities=43%  Similarity=0.837  Sum_probs=162.1

Q ss_pred             CCCCCCeeeeceeEeecceeEEeeecCCceeeccCCCeEEeeeceEEEEEeecccccccccccceEEEeCchhhhhhhhc
Q 026312           52 KGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTM  131 (240)
Q Consensus        52 ~~~~~~rvf~~ysVYkgKAAlsv~p~~P~F~~~~sg~~~v~R~G~IlLeFAPavG~rqYDW~kKq~FsLS~tEvG~LLsl  131 (240)
                      ++.+++|||++|+||||||||+|+|++|+|+.++||+++|+|+|+|||||||++|+|||||+|||+|+||++|||+||++
T Consensus        31 a~~~~~Rvf~~ysVYkgkAALsv~pi~PtF~~l~sG~~kv~R~G~ILLEFAPa~g~RqYDW~kKq~FsLS~tEvG~LLsl  110 (227)
T 1l3a_A           31 QGASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQVFSLSVTEIGSIISL  110 (227)
T ss_dssp             ----CCCEECCEEEECSSEEEEEEEECCEEEECSTTEEEEEECCEEEEEEEEBCSTTCBCGGGCEEEEECHHHHHHHHTC
T ss_pred             CCCCCCeeecceeEEccceEEEEEecCCcceEcCCCcEEEeeCCEEEEEEeeccCccccccccceEEEeCHHHHhHHHhc
Confidence            58889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCceeeeeCccccCCCcCccceeEEEeeCCCC--ceEEEEEeecccCCCceEEEeecHHHHHHHHHHHHhhhhhhccc
Q 026312          132 GPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGW  209 (240)
Q Consensus       132 ~~~~s~effHdP~~g~S~~g~v~K~Lkiep~pdG--~f~nLsV~n~~~~~~~~~~vpVt~gEf~virsl~~y~lP~LLGW  209 (240)
                      +++++|||||||+|++|++|+++|+|+|||+|||  +||||+|+|++++++++++||||+|||+|||++|+|+|||||||
T Consensus       111 ~~~~s~effHdP~~g~s~~g~v~K~LkIep~pdGsG~f~nLSV~nk~~~~de~~~VpVs~gEfaV~rsl~~f~LP~LlGw  190 (227)
T 1l3a_A          111 GTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNKLINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGW  190 (227)
T ss_dssp             CTTCCEEEEECSCCSSSCCCCCEEEEEEEECTTSSEEEEEEEEEEGGGTEEEEEEEEEEHHHHHHHHHHHHHHHHHHTTH
T ss_pred             ccccceEEEecCCcCCcccccceeEEEEeecCCCcccEEEEEeeecccCCcceEEEechHHHHHHHHHHHHhhchhhcch
Confidence            9999999999999999999999999999999997  89999999999999999999999999999999999999999999


Q ss_pred             hhhccCCCCCCCCCCCCCccccc-ccCcccC
Q 026312          210 DRLTNQLPRSSTDSSSSSKVDQQ-FLNLEWD  239 (240)
Q Consensus       210 ~~~~n~~~~~~~~~~~~~~~~~~-~~~~ew~  239 (240)
                      |+++|++  +++++++.++.++. ++|+||+
T Consensus       191 ~a~~~~~--~~~~~~~~~~~~~~~~~~~~~~  219 (227)
T 1l3a_A          191 HTAVNSF--KPEDASRSNNANPRSGAELEWN  219 (227)
T ss_dssp             HHHHTTC--SCC-------------------
T ss_pred             hhccccC--ChhhcccccCCCCCcCCcceec
Confidence            9999999  68888888888885 9999997

>3r9z_A WHY2 protein; stwhy2, single-stranded DNA binding protein, plant, potato, mitochondria, DNA binding protein; 1.75A {Solanum tuberosum} SCOP: d.18.1.0 PDB: 3r9y_A 3ra0_A* 3n1h_A 3n1i_A* 3n1j_A* 3n1k_A* 3n1l_A*

Probab=100.00  E-value=1e-72  Score=482.87  Aligned_cols=167  Identities=71%  Similarity=1.152  Sum_probs=151.1

Q ss_pred             ccCCCCCCeeeeceeEeecceeEEeeecCCceeeccCCCeEEeeeceEEEEEeecccccccccccceEEEeCchhhhhhh
Q 026312           50 SAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLL  129 (240)
Q Consensus        50 ~~~~~~~~rvf~~ysVYkgKAAlsv~p~~P~F~~~~sg~~~v~R~G~IlLeFAPavG~rqYDW~kKq~FsLS~tEvG~LL  129 (240)
                      +++|.+++|||++|+||||||||+|+|++|+|+.++||+++++|+|+|||||||++|+|||||+|||+|+||++|||+||
T Consensus         2 ~~~~~~~~rvy~~~sVYkgkAAl~v~pi~Ptf~~~~sg~~~v~R~G~ilLefapa~g~rqYDW~kK~~FsLS~tEvG~Ll   81 (178)
T 3r9z_A            2 ADAGKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFALSATEVGSLI   81 (178)
T ss_dssp             -----CTTCCCCCEEEECSSEEEEEEEECCCEEECTTSSEEECSCCEEEEEEEEEEETTEECGGGCEEEEECHHHHHHHH
T ss_pred             CCCCCCCCccccCeeEECCceEEEEEecCCcceEcCCCCEEEeeCCEEEEEEeecccccccccccCeEEEeCHHHHHHHH
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCceeeeeCccccCCCcCccceeEEEeeCCCC--ceEEEEEeecccCCCceEEEeecHHHHHHHHHHHHhhhhhhc
Q 026312          130 TMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLM  207 (240)
Q Consensus       130 sl~~~~s~effHdP~~g~S~~g~v~K~Lkiep~pdG--~f~nLsV~n~~~~~~~~~~vpVt~gEf~virsl~~y~lP~LL  207 (240)
                      +++++++|||||||+|++|++|+++|+|+|||+|||  +||||||+|++++++++++||||+|||+|||++|+|+|||||
T Consensus        82 sl~~~~s~effHDP~~g~s~~g~v~K~Lkiep~~dgsG~f~~Lsv~n~~~~~~~~~~vpvt~gEfav~~~~~~~~lP~Ll  161 (178)
T 3r9z_A           82 SMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNLKTNDRFTVPVTTAEFAVMRTAFSFALPHIM  161 (178)
T ss_dssp             TCCTTCCEEEEECC--------CEEEEEEEEECTTSSEEEEEEEEEETTTTEEEEEEEEEEHHHHHHHHHHHHHHHHHHT
T ss_pred             HhcccCcceeEeCcccCCCccCCceeEEEEEECCCCcceEEEEEEecccccccccEEEEecHHHHHHHHHHHHHhhhhhh
Confidence            999999999999999999999999999999999998  999999999999999999999999999999999999999999


Q ss_pred             cchhhccCC
Q 026312          208 GWDRLTNQL  216 (240)
Q Consensus       208 GW~~~~n~~  216 (240)
                      |||+++|+.
T Consensus       162 Gw~~~~~~~  170 (178)
T 3r9z_A          162 GWDRFTNRP  170 (178)
T ss_dssp             TGGGCCC--
T ss_pred             chHHHhCCc
Confidence            999999986

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	240
d1l3aa_	166	d.18.1.2 (A:) Plant transcriptional regulator PBF-	3e-70

>d1l3aa_ d.18.1.2 (A:) Plant transcriptional regulator PBF-2 {Potato (Solanum tuberosum) [TaxId: 4113]} Length = 166

class: Alpha and beta proteins (a+b)
fold: ssDNA-binding transcriptional regulator domain
superfamily: ssDNA-binding transcriptional regulator domain
family: Plant transcriptional regulator PBF-2
domain: Plant transcriptional regulator PBF-2
species: Potato (Solanum tuberosum) [TaxId: 4113]

 Score =  210 bits (536), Expect = 3e-70
 Identities = 73/160 (45%), Positives = 111/160 (69%), Gaps = 2/160 (1%)

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+YDW++KQ 
Sbjct: 3   KVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQV 62

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANN 175
           F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG   F +L+V N 
Sbjct: 63  FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNK 122

Query: 176 ILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLTNQ 215
           ++  +E   +PV+ AEFAV+ +A +F +P+L+GW    N 
Sbjct: 123 LINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAVNS 162

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	240
d1l3aa_	166	Plant transcriptional regulator PBF-2 {Potato (Sol	100.0
d1aoca_	175	Coagulogen {Japanese horseshoe crab (Tachypleus tr	83.9

>d1l3aa_ d.18.1.2 (A:) Plant transcriptional regulator PBF-2 {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a+b)
fold: ssDNA-binding transcriptional regulator domain
superfamily: ssDNA-binding transcriptional regulator domain
family: Plant transcriptional regulator PBF-2
domain: Plant transcriptional regulator PBF-2
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=100.00  E-value=3.3e-64  Score=425.01  Aligned_cols=162  Identities=45%  Similarity=0.874  Sum_probs=159.3

Q ss_pred             CCeeeeceeEeecceeEEeeecCCceeeccCCCeEEeeeceEEEEEeecccccccccccceEEEeCchhhhhhhhcCCCC
Q 026312           56 GGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRD  135 (240)
Q Consensus        56 ~~rvf~~ysVYkgKAAlsv~p~~P~F~~~~sg~~~v~R~G~IlLeFAPavG~rqYDW~kKq~FsLS~tEvG~LLsl~~~~  135 (240)
                      ++|+|++|+||||||||+|+|++|+|+.++||+++|+|+|+|||||+|++|+|||||+|||+|+||++|||+||+|++++
T Consensus         1 ~~r~y~~ysIyk~kaal~ikpi~P~f~~~~ng~~~v~k~G~illef~p~~g~r~YDw~~K~~f~Ls~~e~g~llsl~~~~   80 (166)
T d1l3aa_           1 TPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQVFSLSVTEIGSIISLGTKD   80 (166)
T ss_dssp             CCCEECCEEEECSSEEEEEEEECCEEEECSTTEEEEEECCEEEEEEEEBCSTTCBCGGGCEEEEECHHHHHHHHTCCTTC
T ss_pred             CCccccceEEECCceEEEEEecCCceEEcCCCcEEEccCCEEEEEEccccCccccchhhCeeEEeCHHHHHHHHhhccCC
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeeeeCccccCCCcCccceeEEEeeCCCC--ceEEEEEeecccCCCceEEEeecHHHHHHHHHHHHhhhhhhccchhhc
Q 026312          136 SSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLNVANNILKTNERFVVPVSTAEFAVMKTACSFALPHLMGWDRLT  213 (240)
Q Consensus       136 s~effHdP~~g~S~~g~v~K~Lkiep~pdG--~f~nLsV~n~~~~~~~~~~vpVt~gEf~virsl~~y~lP~LLGW~~~~  213 (240)
                      +|||||||.|+++++|+++|+|++||+|||  +|+|++|+|+..+++++++||||+|||+|||++|+|+||||||||+++
T Consensus        81 s~~ffhdp~~~~s~~g~i~K~lk~~P~pdg~g~f~~l~v~~~~~~~~e~~~Vpvt~~Ef~v~~~~~~~~lP~LlGW~~~~  160 (166)
T d1l3aa_          81 SCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNKLINLDENIYIPVTKAEFAVLVSAFNFVMPYLLGWHTAV  160 (166)
T ss_dssp             CEEEEECSCCSSSCCCCCEEEEEEEECTTSSEEEEEEEEEEGGGTEEEEEEEEEEHHHHHHHHHHHHHHHHHHTTHHHHH
T ss_pred             cceeecCcccccccCCceeEEEEeeecCCCCccEEEEEecccccCccceEEEeecHHHHHHHHHHHHHhhhHhhChHHHh
Confidence            999999999999999999999999999998  899999999999999999999999999999999999999999999999


Q ss_pred             cCCC
Q 026312          214 NQLP  217 (240)
Q Consensus       214 n~~~  217 (240)
                      |+++
T Consensus       161 ~~~~  164 (166)
T d1l3aa_         161 NSFK  164 (166)
T ss_dssp             TTCS
T ss_pred             hccC
Confidence            9983

>d1aoca_ g.17.1.5 (A:) Coagulogen {Japanese horseshoe crab (Tachypleus tridentatus) [TaxId: 6853]}

class: Small proteins
fold: Cystine-knot cytokines
superfamily: Cystine-knot cytokines
family: Coagulogen
domain: Coagulogen
species: Japanese horseshoe crab (Tachypleus tridentatus) [TaxId: 6853]

Probab=83.90  E-value=0.098  Score=41.59  Aligned_cols=52  Identities=27%  Similarity=0.474  Sum_probs=44.0

Q ss_pred             eeceeEeecceeEEeeecCCceeeccCCCeEEeeeceEEEEEeecccccccccccceEE
Q 026312           60 FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHF  118 (240)
Q Consensus        60 f~~ysVYkgKAAlsv~p~~P~F~~~~sg~~~v~R~G~IlLeFAPavG~rqYDW~kKq~F  118 (240)
                      |.||+-|++.+-.+++..-|.|.--      ++.+=.|+.+ ||.+|-||--|+.|-.|
T Consensus        78 f~pf~hf~secpvs~~~cep~fgyt------~~~e~riivq-ap~agfrqcvwqhkcr~  129 (175)
T d1aoca_          78 FPPFTHFKSECPVSTRDCEPVFGYT------VAGEFRVIVQ-APRAGFRQCVWQHKCRF  129 (175)
T ss_dssp             STTCCCCSSBCCEEEECCCCSEEEB------TTCCEEEECC-BTTTTBCBCCCEEEETT
T ss_pred             CCCcccCcccCCcccccccccccce------ecceEEEEEe-CCchhhHHHHHhhhccc
Confidence            4899999999999999999999654      4445556776 89999999999998765