Citrus Sinensis ID: 030060

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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---
Protein Sequence
MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHGLGPVD
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHcccccccccccccccEEEEccccccccccccccccccEEEccEEEEEccEEEEEEEccccEEEcccccEEEEEEcEEEEEEEcccccccccccccEEEEEcHHHHHHHHHcccccccEEEEcccccccccccEEEEEEEEEcccccEEEEEEEEccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHccccccccccccccccHccccHHHcccccccccccccccccccccccccEEccEEEEcccEEEEEEEEccEEEEccccEEEEEEccEEEEEEEEEcccccEcHHHcEEEEEcHHHHHHHHcccccccEEEEEccccccccccccEEEEEEEEcccccEEEEEEEEccccccccc
Coil and Loop (DISEMBL)
mmklsrslLSSRSQLSEKLLAGEANYVRDGLKSHVLISqagmsttghdvsakgslggrifapyyvykgkaafsvdpvlptfmkldsgdlkvkrkGVILLTfapaigerkydwakkqhfalsptevgslltmgprdsseffhdpamlssnagqmRKSLSIKANADGFFISLICIasshglgpvd
Flexible Loop (DISEMBL)
mmklsrsllssRSQLSEKLLAGEANYVRDGLKSHVLISQAgmsttghdvsakgslGGRIFAPYYVYKGKAAFSVDPVLPTFMKLdsgdlkvkrkgVILLTfapaigerkydWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIasshglgpvd
Low Complexity Region (SEG)
MMklsrsllssrsqlsekllAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHGLGPVD
Disordered region (IsUnstruct)
**********************EANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVG*L******************************IKANADGFFISLICIAS********
Disordered Region (DISOPRED)
***********************************************************FAPYYVYKGKAAFSVDPVLPTFMK*****LKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEF*******************IKANADGFFISLICIASS*******
Disordered Region (DISEMBL)
************SQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHGLGPVD
Disordered Region (DISPRO)
***************************RD**************************GGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHGLG**D
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMKLSRSLLSSRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHGLGPVD
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	183	2.2.26 [Sep-21-2011]
D9J034	238	Single-stranded DNA-bindi	N/A	no	0.945	0.726	0.597	4e-52
Q8VYF7	238	Single-stranded DNA-bindi	yes	no	0.901	0.693	0.598	2e-47
B2LXS7	266	Single-stranded DNA-bindi	N/A	no	0.655	0.451	0.516	2e-30
Q9M9S3	263	Single-stranded DNA-bindi	no	no	0.606	0.422	0.504	1e-27
Q9LL85	274	Single-stranded DNA-bindi	N/A	no	0.617	0.412	0.486	1e-27
Q66GR6	268	Single-stranded DNA-bindi	no	no	0.590	0.402	0.477	2e-25

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

 Score =  204 bits (518), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 107/179 (59%), Positives = 134/179 (74%), Gaps = 6/179 (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--GFFISLICIASS 176
           LS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL  + ++
Sbjct: 118 LSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNN 176

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 =  188 bits (478), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 103/172 (59%), Positives = 130/172 (75%), Gaps = 7/172 (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--GFFISL 170
           SPTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL
Sbjct: 116 SPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISL 167

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 =  132 bits (331), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 62/120 (51%), Positives = 80/120 (66%)

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

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

 Score =  122 bits (307), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 56/111 (50%), Positives = 79/111 (71%)

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 KQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
           KQ F+LS TE+G+L+++GPR+S EFFHDP    S+ G++RK L ++   DG
Sbjct: 137 KQVFSLSVTEIGTLVSLGPRESCEFFHDPFKGKSDEGKVRKVLKVEPLPDG 187

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

 Score =  122 bits (306), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/113 (48%), Positives = 81/113 (71%)

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 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
           ++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct: 146 SRKQVFSLSVTEIGSIISLGAKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 198

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

 Score =  115 bits (287), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/109 (47%), Positives = 79/109 (72%), Gaps = 1/109 (0%)

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-LSSNAGQMRKSLSIKANADG 165
           F+LS TE+G+L+++GPR+S EFFHDP     S+ G++RK L ++   DG
Sbjct: 144 FSLSVTEIGNLVSLGPRESCEFFHDPFKGKGSDEGKVRKVLKVEPLPDG 192

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	183
426021772	238	RecName: Full=Single-stranded DNA-bindig	0.945	0.726	0.597	2e-50
449447529	241	PREDICTED: single-stranded DNA-bindig pr	0.934	0.709	0.559	1e-48
118484514	229	unknown [Populus trichocarpa]	0.885	0.707	0.582	4e-47
356573153	235	PREDICTED: uncharacterized protein LOC10	0.912	0.710	0.585	3e-46
255637711	235	unknown [Glycine max]	0.912	0.710	0.585	3e-46
22330568	238	protein WHIRLY 2 [Arabidopsis thaliana]	0.901	0.693	0.598	8e-46
357512363	226	hypothetical protein MTR_7g116270 [Medic	0.863	0.699	0.585	1e-45
12323827	237	unknown protein; 79476-81015 [Arabidopsi	0.896	0.691	0.596	3e-45
388498336	235	unknown [Lotus japonicus]	0.885	0.689	0.584	5e-45
297841891	242	ATWHY2 [Arabidopsis lyrata subsp. lyrata	0.890	0.673	0.561	6e-45

>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 =  204 bits (518), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 107/179 (59%), Positives = 134/179 (74%), Gaps = 6/179 (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--GFFISLICIASS 176
           LS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL  + ++
Sbjct: 118 LSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNN 176

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  197 bits (501), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 99/177 (55%), Positives = 132/177 (74%), Gaps = 6/177 (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--GFFISLICI 173
           ALS TE+GSL+++GPRDS EFFHDP MLSS AGQ+RKSL+IKA+ D  G+F SL  +
Sbjct: 119 ALSATEIGSLISLGPRDSCEFFHDPGMLSSTAGQVRKSLAIKAHTDGNGYFFSLNVV 175

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  192 bits (488), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 102/175 (58%), Positives = 128/175 (73%), Gaps = 13/175 (7%)

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--GFFISLICI 173
           S TEVGSL++ GP+DS EFFHDP+MLSSNAGQ+RK+LSIK +AD  G+F+SL  +
Sbjct: 110 SATEVGSLISTGPKDSCEFFHDPSMLSSNAGQVRKNLSIKPHADGSGYFVSLSVV 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  190 bits (482), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 103/176 (58%), Positives = 129/176 (73%), Gaps = 9/176 (5%)

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 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICI 173
           FALS TEVGSL+TMG +DS +FFHDP+MLSSNAGQ+RKSLSIK +A+G+F+SL  +
Sbjct: 115 FALSATEVGSLITMGAQDSCDFFHDPSMLSSNAGQVRKSLSIKPHANGYFVSLTVV 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  189 bits (481), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 103/176 (58%), Positives = 129/176 (73%), Gaps = 9/176 (5%)

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 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICI 173
           FALS TEVGSL+TMG +DS +FFHDP+MLSSNAGQ+RKSLSIK +A+G+F+SL  +
Sbjct: 115 FALSATEVGSLITMGAQDSCDFFHDPSMLSSNAGQVRKSLSIKPHANGYFVSLTVV 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  188 bits (478), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 103/172 (59%), Positives = 130/172 (75%), Gaps = 7/172 (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--GFFISL 170
           SPTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL
Sbjct: 116 SPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISL 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  188 bits (477), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 103/176 (58%), Positives = 123/176 (69%), Gaps = 18/176 (10%)

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 LSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIAS 175
           LS TEVGSL+ +GP+DS EFFHDP+M SSNAGQ+RKSLSIK +++G+F+SL  + S
Sbjct: 108 LSATEVGSLIAIGPQDSCEFFHDPSMKSSNAGQVRKSLSIKPHSNGYFVSLSVVNS 163

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  186 bits (472), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 102/171 (59%), Positives = 129/171 (75%), Gaps = 7/171 (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--GFFISL 170
           PTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLS+K +AD  G+FISL
Sbjct: 116 PTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKPHADGSGYFISL 166

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  185 bits (470), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 104/178 (58%), Positives = 125/178 (70%), Gaps = 16/178 (8%)

Query: 1   MMKLSRSLLS-SRSQLSE-KLLAGEAN-YVRDGLKSHVLISQAGMSTTGHDVSAKGSLGG 57
           M+KL R L S SR+ + E ++L+   N  VRD        S A   T      AKG    
Sbjct: 1   MLKLLRVLPSTSRNWVLEMEVLSSSRNPQVRD-------FSTAARET----YVAKGYTTD 49

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           R+FAPYYVYKGKAA S+ PVLPTF KLDSG L V+R+G I++ F PAIGERKYDW K+Q 
Sbjct: 50  RVFAPYYVYKGKAAMSLSPVLPTFTKLDSGALVVERRGSIMMVFTPAIGERKYDWEKRQK 109

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIK--ANADGFFISLICI 173
           FALS TEVGSL+ MGP+DS EFFHDP+M SSNAGQ+RKSLSIK  AN+ G+F+SL  +
Sbjct: 110 FALSATEVGSLIAMGPQDSCEFFHDPSMSSSNAGQVRKSLSIKPHANSSGYFVSLTVV 167

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297841891|ref|XP_002888827.1| ATWHY2 [Arabidopsis lyrata subsp. lyrata] gi|297334668|gb|EFH65086.1| ATWHY2 [Arabidopsis lyrata subsp. lyrata]

 Score =  185 bits (470), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 100/178 (56%), Positives = 130/178 (73%), Gaps = 15/178 (8%)

Query: 1   MMKLSRSLLS------SRSQLSEKLLAGEANYVRDGLKSHVLISQAGMSTTGHDVSAKGS 54
           MMK +R+LLS      S+S   E++   +A+ +R G  S    S  G   +G D      
Sbjct: 1   MMKQARTLLSRSLCDHSKSLFEERV---KASTLR-GFASWSSSSTPGRGFSGKDAPKPS- 55

Query: 55  LGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAK 114
             GR+FAPY ++KGKAA SV+PVLP+F ++DSG+L++ R+G +++TF PAIGERKYDW K
Sbjct: 56  --GRLFAPYSIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEK 113

Query: 115 KQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
           KQ FALSPTEVGSL++MG +DSSEFFHDP+M SSNAGQ+RKSLSIK +AD  G+FISL
Sbjct: 114 KQKFALSPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSIKPHADGSGYFISL 171

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

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	183
UNIPROTKB|D9J034	238	WHY2 "Single-stranded DNA-bind	0.786	0.605	0.639	3.1e-44
TAIR|locus:2032293	238	ATWHY2 "WHIRLY 2" [Arabidopsis	0.786	0.605	0.62	7.3e-43
UNIPROTKB|B2LXS7	266	WHY1 "Single-stranded DNA-bind	0.655	0.451	0.516	7.1e-29
TAIR|locus:2012542	263	WHY1 "WHIRLY 1" [Arabidopsis t	0.622	0.433	0.504	5.7e-27
UNIPROTKB|Q9LL85	274	WHY1 "Single-stranded DNA-bind	0.622	0.416	0.482	7.3e-27
TAIR|locus:2058822	268	WHY3 "AT2G02740" [Arabidopsis	0.590	0.402	0.477	5.9e-25

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

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 94/147 (63%), Positives = 115/147 (78%)

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--FFISL 170
             LSSNAGQ+RKSLSIK NADG  +FISL
Sbjct:   144 LSSNAGQVRKSLSIKPNADGSGYFISL 170

GO:0003677 "DNA binding" evidence=IDA

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

 Score = 453 (164.5 bits), Expect = 7.3e-43, P = 7.3e-43
 Identities = 93/150 (62%), Positives = 118/150 (78%)

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--FFISL 170
             P+M SSNAGQ+RKSLS+K +ADG  +FISL
Sbjct:   138 PSMKSSNAGQVRKSLSVKPHADGSGYFISL 167

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 = 321 (118.1 bits), Expect = 7.1e-29, P = 7.1e-29
 Identities = 62/120 (51%), Positives = 80/120 (66%)

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

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

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

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 58/115 (50%), Positives = 82/115 (71%)

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 165
             DW+KKQ F+LS TE+G+L+++GPR+S EFFHDP    S+ G++RK L ++   DG
Sbjct:   133 DWSKKQVFSLSVTEIGTLVSLGPRESCEFFHDPFKGKSDEGKVRKVLKVEPLPDG 187

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

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

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 55/114 (48%), Positives = 82/114 (71%)

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 165
             W++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct:   145 WSRKQVFSLSVTEIGSIISLGAKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 198

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

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 52/109 (47%), Positives = 79/109 (72%)

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-LSSNAGQMRKSLSIKANADG 165
             F+LS TE+G+L+++GPR+S EFFHDP     S+ G++RK L ++   DG
Sbjct:   144 FSLSVTEIGNLVSLGPRESCEFFHDPFKGKGSDEGKVRKVLKVEPLPDG 192


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        0.319   0.135   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      183       165   0.00093  107 3  11 22  0.38    32
                                                     30  0.45    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:  6
  No. of states in DFA:  582 (62 KB)
  Total size of DFA:  136 KB (2084 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:  13.75u 0.10s 13.85t   Elapsed:  00:00:00
  Total cpu time:  13.75u 0.10s 13.85t   Elapsed:  00:00:00
  Start:  Fri May 10 06:38:05 2013   End:  Fri May 10 06:38:05 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	0.5988	0.9016	0.6932	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	183
pfam08536	139	pfam08536, Whirly, Whirly transcription factor	4e-46

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

 Score =  147 bits (373), Expect = 4e-46
 Identities = 63/108 (58%), Positives = 79/108 (73%), Gaps = 2/108 (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--GFFISL 170
            G L +MG  DS EFFHDP+   SNAGQ+RK+L ++   D  G+F++L
Sbjct: 62  AGELASMGSNDSCEFFHDPSAGGSNAGQVRKALKVEPMPDGSGYFVNL 109

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	183
PF08536	139	Whirly: Whirly transcription factor; InterPro: IPR	100.0
PF02035	174	Coagulin: Coagulin; InterPro: IPR000275 Coagulogen	89.49

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

Probab=100.00  E-value=7.8e-60  Score=377.96  Aligned_cols=116  Identities=59%  Similarity=0.956  Sum_probs=100.1

Q ss_pred             eeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEEEeChhhHhhhhhccCCCceeeeeCC
Q 030060           64 YVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDP  143 (183)
Q Consensus        64 sIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~FaLS~tEvG~Llsl~~~~s~effHDP  143 (183)
                      +||||||||+|+|++|+|+.++||+++++|+|+||||||||+|+|||||+|||+|+|||+|+|+||+|+++++|||||||
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             CCCCCCCCceeeeEEeEeCCCC--ceEEEEEeeccccc
Q 030060          144 AMLSSNAGQMRKSLSIKANADG--FFISLICIASSHGL  179 (183)
Q Consensus       144 ~~g~S~~G~vrK~LkveP~~dG--~f~~LsV~n~~~~~  179 (183)
                      +|++|++|+|||+|||||+|||  |||||+|+|+++|.
T Consensus        81 ~~~~s~~G~v~K~Lkv~p~~dgsg~f~~Lsv~~~~~~~  118 (139)
T PF08536_consen   81 NMGSSNEGKVRKSLKVEPLPDGSGYFFNLSVQNKLLNG  118 (139)
T ss_dssp             TTTSTTTTSEEEEEEEEE-TTSSEEEEEEEEEECCCTE
T ss_pred             ccCCCCCCceEEEEEeEECCCCCceEEEEEEecccccc
Confidence            9999999999999999999996  99999999999884

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

>PF02035 Coagulin: Coagulin; InterPro: IPR000275 Coagulogen is a gel-forming protein of hemolymph that hinders the spread of invaders by immobilising them [, ]

Probab=89.49  E-value=0.35  Score=40.42  Aligned_cols=50  Identities=26%  Similarity=0.548  Sum_probs=28.3

Q ss_pred             eeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccce
Q 030060           60 FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQ  116 (183)
Q Consensus        60 y~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq  116 (183)
                      |+||.-|+..+-.+.+..-|.|.-.-+|.+.      |++| ||.+|-||--|+.|-
T Consensus        76 f~pf~hf~secpvstrdcepvfgyt~a~efr------vivq-apragfrqcvwqhkc  125 (174)
T PF02035_consen   76 FPPFHHFKSECPVSTRDCEPVFGYTVAGEFR------VIVQ-APRAGFRQCVWQHKC  125 (174)
T ss_dssp             STT----SSB--EEEE----SEEE-TTS-EE------EE---BCCCTB-B---EEEE
T ss_pred             CCCcccccccCCcccccccccccceecceEE------EEEe-CchhhHHHHHHHhhh
Confidence            5999999999999999999999988888765      5677 999999999999885

The protein contains a single 175- residue polypeptide chain; this is cleaved after Arg-18 and Arg-46 by a clotting enzyme contained in the hemocyte and activated by a bacterial endotoxin (lipopolysaccharide). Cleavage releases two chains of coagulin, A and B, linked by two disulphide bonds, together with the peptide C [, ]. Gel formation results from interlinking of coagulin molecules. Secondary structure prediction suggests the C peptide forms an alpha- helix, which is released during the proteolytic conversion of coagulogen to coagulin gel []. The beta-sheet structure and 16 half-cystines found in the molecule appear to yield a compact protein stable to acid and heat. Mammalian blood coagulation is based on the proteolytically induced polymerisation of fibrinogens. Initially, fibrin monomers noncovalently interact with each other. The resulting homopolymers are further stabilised when the plasma transglutaminase (TGase) intermolecularly cross-links epsilon-(gamma-glutamyl)lysine bonds. In crustaceans, hemolymph coagulation depends on the TGase-mediated cross-linking of specific plasma-clotting proteins, but without the proteolytic cascade. In horseshoe crabs, the proteolytic coagulation cascade triggered by lipopolysaccharides and beta-1,3-glucans leads to the conversion of coagulogen into coagulin, resulting in noncovalent coagulin homopolymers through head-to-tail interaction. Horseshoe crab TGase, however, does not cross-link coagulins intermolecularly. Recently, we found that coagulins are cross-linked on hemocyte cell surface proteins called proxins. This indicates that a cross-linking reaction at the final stage of hemolymph coagulation is an important innate immune system of horseshoe crabs [].; GO: 0042381 hemolymph coagulation, 0005576 extracellular region; PDB: 1AOC_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	183
3n1h_A	178	Crystal Structure Of Stwhy2 Length = 178		2e-46
3r9y_A	178	Crystal Structure Of Stwhy2 K67a (Form I) Length =		9e-46
1l3a_A	227	Structure Of The Plant Transcriptional Regulator Pb		2e-28

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

Iteration: 1
 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/126 (68%), Positives = 105/126 (83%), Gaps = 2/126 (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 ICIASS 176
             + ++
Sbjct: 125 SVVNNN 130

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

Iteration: 1
 Score =  179 bits (453), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 85/126 (67%), Positives = 104/126 (82%), Gaps = 2/126 (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 ICIASS 176
             + ++
Sbjct: 125 SVVNNN 130

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

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/108 (50%), Positives = 79/108 (73%)
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 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
           F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct: 97  FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 144

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	183
3r9z_A	178	WHY2 protein; stwhy2, single-stranded DNA binding	4e-47
1l3a_A	227	PBF-2, P24: plant transcriptional regulator PBF-2;	2e-45
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-04

>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 =  151 bits (381), Expect = 4e-47
 Identities = 85/124 (68%), Positives = 103/124 (83%), Gaps = 2/124 (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 FISL 170
           FISL
Sbjct: 121 FISL 124

>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 =  148 bits (373), Expect = 2e-45
 Identities = 55/116 (47%), Positives = 82/116 (70%)

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 YDWAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
           YDW++KQ F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct: 89  YDWSRKQVFSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 144

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

 Score = 38.3 bits (88), Expect = 8e-04
 Identities = 28/174 (16%), Positives = 46/174 (26%), Gaps = 34/174 (19%)

Query: 6   RSLLSSRSQLSEKLLAGEANYVRD----------GLKSHVLISQAGMSTTGHDVSAKGSL 55
           R LL S+      LL      + +           L   +L+      TT         L
Sbjct: 235 RRLLKSK-PYENCLLV-----LLNVQNAKAWNAFNLSCKILL------TTR-FKQVTDFL 281

Query: 56  GGRIFAPYYVYKGKAAFSVDPVLPTFMK---LDSGDLKVKRKGVILLTFAPAIGERKYD- 111
                    +       + D V    +K       DL  +         +  I E   D 
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS-IIAESIRDG 340

Query: 112 ------WAKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSI 159
                 W       L+     SL  + P +  + F   ++   +A      LS+
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	183
3r9z_A	178	WHY2 protein; stwhy2, single-stranded DNA binding	100.0
1l3a_A	227	PBF-2, P24: plant transcriptional regulator PBF-2;	100.0
1aoc_A	175	Coagulogen; coagulation factor, clottable protein,	90.22

>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=3.7e-61  Score=397.00  Aligned_cols=130  Identities=65%  Similarity=1.068  Sum_probs=115.2

Q ss_pred             cCCCCCCCeeeeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEEEeChhhHhhhh
Q 030060           50 SAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLL  129 (183)
Q Consensus        50 s~~~~~~~Rvy~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~FaLS~tEvG~Ll  129 (183)
                      +++|.+++|||++|+||||||||+|+|++|+|+.++||+++++|+|+||||||||+|+|||||+|||+|+||++|+|+||
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            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCCceeeeeCCCCCCCCCCceeeeEEeEeCCCC--ceEEEEEeeccccc
Q 030060          130 TMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLICIASSHGL  179 (183)
Q Consensus       130 sl~~~~s~effHDP~~g~S~~G~vrK~LkveP~~dG--~f~~LsV~n~~~~~  179 (183)
                      ++++++||||||||+|++|++|+|+|+|||||+|||  +||||+|+|++.|.
T Consensus        82 sl~~~~s~effHDP~~g~s~~g~v~K~Lkiep~~dgsG~f~~Lsv~n~~~~~  133 (178)
T 3r9z_A           82 SMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISLSVVNNNLKT  133 (178)
T ss_dssp             TCCTTCCEEEEECC--------CEEEEEEEEECTTSSEEEEEEEEEETTTTE
T ss_pred             HhcccCcceeEeCcccCCCccCCceeEEEEEECCCCcceEEEEEEecccccc
Confidence            999999999999999999999999999999999998  99999999998763

>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=6.2e-57  Score=382.86  Aligned_cols=129  Identities=45%  Similarity=0.832  Sum_probs=121.9

Q ss_pred             CCCCCCCeeeeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEEEeChhhHhhhhh
Q 030060           51 AKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLT  130 (183)
Q Consensus        51 ~~~~~~~Rvy~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~FaLS~tEvG~Lls  130 (183)
                      .++.+++|||++|+||||||||+|+|++|+|+.++||+++++|+|+|||||||++|+|||||+|||+|+||++|||+||+
T Consensus        30 ~a~~~~~Rvf~~ysVYkgkAALsv~pi~PtF~~l~sG~~kv~R~G~ILLEFAPa~g~RqYDW~kKq~FsLS~tEvG~LLs  109 (227)
T 1l3a_A           30 PQGASTPKVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQVFSLSVTEIGSIIS  109 (227)
T ss_dssp             -----CCCEECCEEEECSSEEEEEEEECCEEEECSTTEEEEEECCEEEEEEEEBCSTTCBCGGGCEEEEECHHHHHHHHT
T ss_pred             CCCCCCCeeecceeEEccceEEEEEecCCcceEcCCCcEEEeeCCEEEEEEeeccCccccccccceEEEeCHHHHhHHHh
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceeeeeCCCCCCCCCCceeeeEEeEeCCCC--ceEEEEEeeccccc
Q 030060          131 MGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLICIASSHGL  179 (183)
Q Consensus       131 l~~~~s~effHDP~~g~S~~G~vrK~LkveP~~dG--~f~~LsV~n~~~~~  179 (183)
                      |+++++|||||||+||+|++|+|+|+|+|||+|||  +||||+|+|+++|.
T Consensus       110 l~~~~s~effHdP~~g~s~~g~v~K~LkIep~pdGsG~f~nLSV~nk~~~~  160 (227)
T 1l3a_A          110 LGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNKLINL  160 (227)
T ss_dssp             CCTTCCEEEEECSCCSSSCCCCCEEEEEEEECTTSSEEEEEEEEEEGGGTE
T ss_pred             cccccceEEEecCCcCCcccccceeEEEEeecCCCcccEEEEEeeecccCC
Confidence            99999999999999999999999999999999997  99999999998763

>1aoc_A Coagulogen; coagulation factor, clottable protein, cystine knot superfamily; 2.00A {Tachypleus tridentatus} SCOP: g.17.1.5

Probab=90.22  E-value=0.19  Score=40.88  Aligned_cols=52  Identities=27%  Similarity=0.577  Sum_probs=46.4

Q ss_pred             eeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEE
Q 030060           60 FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHF  118 (183)
Q Consensus        60 y~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~F  118 (183)
                      |+||.-|+..+-.+.+..-|.|.-.-+|.+.      |++| ||.+|-||--|+.|-.|
T Consensus        78 f~pf~hf~secpvstrdcepvfgyt~a~efr------vivq-apragfrqcvwqhkcry  129 (175)
T 1aoc_A           78 FPPFTHFKSECPVSTRDCEPVFGYTVAGEFR------VIVQ-APRAGFRQCVWQHKCRF  129 (175)
T ss_dssp             STTCCCCSSBCCEEEECCCCSEEEBTTCCEE------EECC-BTTTTBCBCCCEEEETT
T ss_pred             CCCcccccccCCcccccccccccceecceEE------EEEe-CchhhhHHHHHhhhccc
Confidence            5999999999999999999999998888765      5666 99999999999998654

---

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	183
d1l3aa_	166	d.18.1.2 (A:) Plant transcriptional regulator PBF-	8e-48

>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 =  151 bits (383), Expect = 8e-48
 Identities = 54/108 (50%), Positives = 79/108 (73%)

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 165
           F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct: 63  FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 110

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	183
d1l3aa_	166	Plant transcriptional regulator PBF-2 {Potato (Sol	100.0
d1aoca_	175	Coagulogen {Japanese horseshoe crab (Tachypleus tr	92.16

>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=2.3e-52  Score=338.69  Aligned_cols=124  Identities=46%  Similarity=0.846  Sum_probs=121.5

Q ss_pred             CCeeeeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEEEeChhhHhhhhhccCCC
Q 030060           56 GGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHFALSPTEVGSLLTMGPRD  135 (183)
Q Consensus        56 ~~Rvy~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~FaLS~tEvG~Llsl~~~~  135 (183)
                      ++|+|++|+|||||||++++|++|+|..+++|+++|+|+|.|||||+|++|+|||||++||+|+||++|+|+||+|++++
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            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeeeeCCCCCCCCCCceeeeEEeEeCCCC--ceEEEEEeeccccc
Q 030060          136 SSEFFHDPAMLSSNAGQMRKSLSIKANADG--FFISLICIASSHGL  179 (183)
Q Consensus       136 s~effHDP~~g~S~~G~vrK~LkveP~~dG--~f~~LsV~n~~~~~  179 (183)
                      ||||||||.|+.|++|+|+|+|++||+|||  +|+||+|+|++.|.
T Consensus        81 s~~ffhdp~~~~s~~g~i~K~lk~~P~pdg~g~f~~l~v~~~~~~~  126 (166)
T d1l3aa_          81 SCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNKLINL  126 (166)
T ss_dssp             CEEEEECSCCSSSCCCCCEEEEEEEECTTSSEEEEEEEEEEGGGTE
T ss_pred             cceeecCcccccccCCceeEEEEeeecCCCCccEEEEEecccccCc
Confidence            999999999999999999999999999998  99999999998774

>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=92.16  E-value=0.043  Score=42.58  Aligned_cols=52  Identities=27%  Similarity=0.577  Sum_probs=46.4

Q ss_pred             eeceeeeecceeEEeeccCCceeecCCCCeEEeeeeeEEEEeecccCCcccccccceEE
Q 030060           60 FAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQHF  118 (183)
Q Consensus        60 y~~ysIYKgKAAlsv~p~~P~F~~l~SG~~kv~R~G~vlLeFAPa~G~RqYDW~kKq~F  118 (183)
                      |.||+-|+..+-.+++..-|+|.-.-+|.+.      |++| ||.+|-||--|+.|-.|
T Consensus        78 f~pf~hf~secpvs~~~cep~fgyt~~~e~r------iivq-ap~agfrqcvwqhkcr~  129 (175)
T d1aoca_          78 FPPFTHFKSECPVSTRDCEPVFGYTVAGEFR------VIVQ-APRAGFRQCVWQHKCRF  129 (175)
T ss_dssp             STTCCCCSSBCCEEEECCCCSEEEBTTCCEE------EECC-BTTTTBCBCCCEEEETT
T ss_pred             CCCcccCcccCCcccccccccccceecceEE------EEEe-CCchhhHHHHHhhhccc
Confidence            5899999999999999999999988887765      5667 99999999999999765