Citrus Sinensis ID: 023428

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280--
Protein Sequence
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPTP
Secondary Structure (PSIPRED)
cccEEEEcccEEccccccccccccccccccHHHHHHcccccccEEEcccccEEEEEccHHHccccHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEEEccEEEEEcccccccccHHHHHHcccccccccccccccEEEEEccccccEEEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEEEcccccccccHHHHHHHccHEEEcEcccccccEHHHHEccccEcccHHHHcccccEEEEHEEccccccccccccccccccHcHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEEEEEEEccEEEEEEcccccccccHHHHHHcccccccccccccEEEEEEcccccccEEEEEccEEEccccc
Coil and Loop (DISEMBL)
MVQVLSLStlttsgnggfygspalWRRHFKLLEksrigidrpcfchqfVQGLHLRVTFNLLRQRNLRANAgwlfkggsdrgldassersesanEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAkrglsskseAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVicgmdpvccessswMEIAQVEKlqqgpsqpfyQVLVDVHadpnilvaygncisldptp
Flexible Loop (DISEMBL)
MVQVLSLStlttsgnggfygspaLWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQleakrglsskseaqDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYgncisldptp
Low Complexity Region (SEG)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKleaeslaasatalafenaRFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPTP
Disordered region (IsUnstruct)
*********LTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKG******************DILFFFFQLDLATRVQCALNMEEYDIAQQLR******************************LSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISL****
Disordered Region (DISOPRED)
**********TTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRV***************************************ILFFFFQLDLATRVQCALNMEEYDIAQQLRN******************************SIIRLRADLQKAIDSENYALAADLRD*************************FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEK**QGPSQPFYQVLVDVHADPNILVAYGNCIS*****
Disordered Region (DISEMBL)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGS************SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEE*******************DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPTP
Disordered Region (DISPRO)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGG*************SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAK****SKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDP**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALxxxxxxxxxxxxxxxxxxxxxxxxxxxxKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPTP
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	282	2.2.26 [Sep-21-2011]
Q8VDH1	627	F-box only protein 21 OS=	yes	no	0.191	0.086	0.407	4e-06
O94952	628	F-box only protein 21 OS=	yes	no	0.191	0.085	0.407	4e-06
Q5R5S1	621	F-box only protein 21 OS=	yes	no	0.191	0.086	0.407	4e-06

>sp|Q8VDH1|FBX21_MOUSE F-box only protein 21 OS=Mus musculus GN=Fbxo21 PE=2 SV=1

 Score = 52.4 bits (124), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
           + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct: 503 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex.
Mus musculus (taxid: 10090)

>sp|O94952|FBX21_HUMAN F-box only protein 21 OS=Homo sapiens GN=FBXO21 PE=2 SV=2

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
           + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct: 503 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex.

Homo sapiens (taxid: 9606)

>sp|Q5R5S1|FBX21_PONAB F-box only protein 21 OS=Pongo abelii GN=FBXO21 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
           + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct: 496 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 549

Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex.

Pongo abelii (taxid: 9601)

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	282
147818712	1072	hypothetical protein VITISV_009461 [Viti	0.964	0.253	0.726	1e-108
225423547	340	PREDICTED: uncharacterized protein LOC10	0.964	0.8	0.726	1e-108
255542114	336	DNA binding protein, putative [Ricinus c	0.950	0.797	0.723	1e-104
449452875	336	PREDICTED: uncharacterized protein LOC10	0.960	0.806	0.624	8e-92
356499859	327	PREDICTED: uncharacterized protein LOC10	0.939	0.810	0.686	1e-91
42568906	330	uvrB/uvrC motif-containing protein [Arab	0.953	0.815	0.644	3e-89
297817996	331	hypothetical protein ARALYDRAFT_904615 [	0.953	0.812	0.638	6e-88
357487407	300	F-box only protein [Medicago truncatula]	0.971	0.913	0.630	4e-87
356494893	303	PREDICTED: uncharacterized protein LOC10	0.751	0.699	0.761	9e-83
125527819	275	hypothetical protein OsI_03852 [Oryza sa	0.730	0.749	0.717	4e-81

>gi|147818712|emb|CAN65041.1| hypothetical protein VITISV_009461 [Vitis vinifera]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 199/274 (72%), Positives = 226/274 (82%), Gaps = 2/274 (0%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRI--GIDRPCFCHQFVQGLHLRVTF 58
           MVQ +S+STLTTSGNGG YGS ALW RHF+L+ K++I  G +R    H   Q L      
Sbjct: 1   MVQCVSVSTLTTSGNGGVYGSTALWGRHFQLMRKTQIRTGSERNFLWHHCAQRLFFAGQL 60

Query: 59  NLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
            + RQRNLR  AGWLFKGG D+GLDASSE SESANEDIL FFFQLDLATRVQ ALN E+Y
Sbjct: 61  VMQRQRNLRVEAGWLFKGGGDQGLDASSECSESANEDILIFFFQLDLATRVQYALNTEQY 120

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           +IAQQLR+KLTEVE E+ +Q EAKRG +SKSEAQDKALS+IRLRADLQKAI++ENYALAA
Sbjct: 121 EIAQQLRDKLTEVEAEVVKQREAKRGSTSKSEAQDKALSMIRLRADLQKAIEAENYALAA 180

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
           +LRD+I KLEAESLAASA AL +EN  +AFRLGQKV HK+FGY AVICGMDPVCCESSSW
Sbjct: 181 ELRDEINKLEAESLAASANALVYENTPYAFRLGQKVRHKVFGYSAVICGMDPVCCESSSW 240

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
            E A V+KL +G +QPFYQVLVDVH DPN+LVAY
Sbjct: 241 RESAHVDKLTRGSNQPFYQVLVDVHVDPNLLVAY 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423547|ref|XP_002274826.1| PREDICTED: uncharacterized protein LOC100266199 [Vitis vinifera] gi|297738051|emb|CBI27252.3| unnamed protein product [Vitis vinifera]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 199/274 (72%), Positives = 226/274 (82%), Gaps = 2/274 (0%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRI--GIDRPCFCHQFVQGLHLRVTF 58
           MVQ +S+STLTTSGNGG YGS ALW RHF+L+ K++I  G +R    H   Q L      
Sbjct: 1   MVQCVSVSTLTTSGNGGVYGSTALWGRHFQLMRKTQIRTGSERNFLWHHCAQRLFFAGQL 60

Query: 59  NLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
            + RQRNLR  AGWLFKGG D+GLDASSE SESANEDIL FFFQLDLATRVQ ALN E+Y
Sbjct: 61  VMQRQRNLRVEAGWLFKGGGDQGLDASSECSESANEDILIFFFQLDLATRVQYALNTEQY 120

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           +IAQQLR+KLTEVE E+ +Q EAKRG +SKSEAQDKALS+IRLRADLQKAI++ENYALAA
Sbjct: 121 EIAQQLRDKLTEVEAEVVKQREAKRGSTSKSEAQDKALSMIRLRADLQKAIEAENYALAA 180

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
           +LRD+I KLEAESLAASA AL +EN  +AFRLGQKV HK+FGY AVICGMDPVCCESSSW
Sbjct: 181 ELRDEINKLEAESLAASANALVYENTPYAFRLGQKVRHKVFGYSAVICGMDPVCCESSSW 240

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
            E A V+KL +G +QPFYQVLVDVH DPN+LVAY
Sbjct: 241 RESAHVDKLTRGSNQPFYQVLVDVHVDPNLLVAY 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542114|ref|XP_002512121.1| DNA binding protein, putative [Ricinus communis] gi|223549301|gb|EEF50790.1| DNA binding protein, putative [Ricinus communis]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/275 (72%), Positives = 220/275 (80%), Gaps = 7/275 (2%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWR-RHFKLLEKSR--IGIDRPCFCHQFVQGLHLRVT 57
           MVQ LSL+ LT S N G   S   WR RHFKL+ ++    GIDR    HQ VQ L+    
Sbjct: 1   MVQNLSLNALTVSRNCGICVSLPSWRGRHFKLVRRTHNAFGIDR----HQLVQSLYFMGN 56

Query: 58  FNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEE 117
            NL R RNLR  AGWLF  G ++  +AS ERSESANEDIL FFFQLDLATRVQ ALN E+
Sbjct: 57  PNLSRHRNLRVEAGWLFNRGGNQESEASCERSESANEDILIFFFQLDLATRVQYALNTEQ 116

Query: 118 YDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALA 177
           YDIAQQLRNKLTEVE E+ RQ EAKRG SSKSEAQDKALSIIRLRADLQ AI++ENYA+A
Sbjct: 117 YDIAQQLRNKLTEVEAEVIRQQEAKRGSSSKSEAQDKALSIIRLRADLQNAIENENYAMA 176

Query: 178 ADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSS 237
           A LRDQI KLEAESLAAS  ALA+ENA++AFRLGQKV HK FGY+AV+CGMDPVCCESSS
Sbjct: 177 AQLRDQISKLEAESLAASVNALAYENAQYAFRLGQKVTHKTFGYQAVVCGMDPVCCESSS 236

Query: 238 WMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           WME AQVEKL +G +QPFYQVLVDVHADPN+LVAY
Sbjct: 237 WMETAQVEKLSRGSNQPFYQVLVDVHADPNLLVAY 271

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452875|ref|XP_004144184.1| PREDICTED: uncharacterized protein LOC101203572 [Cucumis sativus]

 Score =  342 bits (878), Expect = 8e-92,   Method: Compositional matrix adjust.
 Identities = 171/274 (62%), Positives = 208/274 (75%), Gaps = 3/274 (1%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIG--IDRPCFCHQFVQGLHLRVTF 58
           MVQ LS+  +T  G+   YGS   WRR+FK  +++ +     R CF HQ ++   L    
Sbjct: 1   MVQDLSIHAMTALGDPNVYGSALSWRRNFKYFKQTSLTQLTSRQCFWHQCMRSFSLTSQP 60

Query: 59  NLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
              ++ + +  AGWLFKGG         ERSE+AN DIL FFFQLDLATRVQ ALN+E+Y
Sbjct: 61  RRSKRGSFKIRAGWLFKGGGQES-GGRIERSENANNDILIFFFQLDLATRVQYALNIEQY 119

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           +IAQ+LR KLTEVE E+ +Q E+K+GL+SKSE QDK L+IIRLRADLQKA++SENYALAA
Sbjct: 120 EIAQELRMKLTEVEAEVIKQQESKKGLTSKSEVQDKGLNIIRLRADLQKAVESENYALAA 179

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
            LRD+I KLE +SLAASA  LA+E+A ++FRLGQKV HKIFGYR VICGMDPVCCESSSW
Sbjct: 180 QLRDEISKLETDSLAASAKVLAYESAEYSFRLGQKVRHKIFGYRGVICGMDPVCCESSSW 239

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           MEIAQVEKL +G +QPFYQVLVDV  DP++LVAY
Sbjct: 240 MEIAQVEKLSRGSNQPFYQVLVDVRTDPDLLVAY 273

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499859|ref|XP_003518753.1| PREDICTED: uncharacterized protein LOC100794023 [Glycine max]

 Score =  342 bits (876), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 188/274 (68%), Positives = 219/274 (79%), Gaps = 9/274 (3%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGID--RPCFCHQFVQGLHLRVTF 58
           MVQV+SLSTL T GN    GS   W   F+  ++S+I     R    +  VQ L L    
Sbjct: 1   MVQVVSLSTLATCGNSRLCGSSPSWMAPFEPYKRSQITSSNGRHLVWNNSVQSLFL---- 56

Query: 59  NLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
              R  + RA A W+F+GG ++GLDASSE SESANEDIL FFFQLDLATRVQ ALNME+Y
Sbjct: 57  --TRHSDFRAEAAWMFRGG-EQGLDASSEHSESANEDILMFFFQLDLATRVQYALNMEQY 113

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           DIA+QLRNKL EVEEE+ +Q ++KRGLSSK EAQDKA+SIIRLR+DLQKAI++E+YALAA
Sbjct: 114 DIAKQLRNKLAEVEEEVIKQQQSKRGLSSKGEAQDKAISIIRLRSDLQKAIENEDYALAA 173

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
           +LRD+I KLEAESLAASATALA ENA++AFRLGQKV HK FGYRAVICGMDPVC ESSSW
Sbjct: 174 ELRDEISKLEAESLAASATALAHENAQYAFRLGQKVRHKKFGYRAVICGMDPVCSESSSW 233

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           ME AQV+KL +G +QPFYQVLVDVHA+PN+LVAY
Sbjct: 234 MENAQVKKLSRGSAQPFYQVLVDVHAEPNLLVAY 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42568906|ref|NP_178438.2| uvrB/uvrC motif-containing protein [Arabidopsis thaliana] gi|51971212|dbj|BAD44298.1| unknown protein [Arabidopsis thaliana] gi|51971335|dbj|BAD44332.1| unknown protein [Arabidopsis thaliana] gi|330250601|gb|AEC05695.1| uvrB/uvrC motif-containing protein [Arabidopsis thaliana]

 Score =  334 bits (856), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 176/273 (64%), Positives = 203/273 (74%), Gaps = 4/273 (1%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNL 60
           MVQ  SLSTLT  G+       +L R     ++ S +  DR   C    +    R  +  
Sbjct: 1   MVQSQSLSTLTICGS---VKVSSLLRNRLNSVKASSLIGDRCVSCQFLRKSPSFRSHWKS 57

Query: 61  LRQRNL-RANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYD 119
           L+QRNL R  A W F+GG ++GLD SSERSESANEDIL FFFQLDLATRVQ A+N+E+YD
Sbjct: 58  LKQRNLLRVEARWPFQGGGEQGLDPSSERSESANEDILIFFFQLDLATRVQYAMNLEQYD 117

Query: 120 IAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAAD 179
           IAQQLR KLTEVEEE  R  E KRG S+KSEAQDK +SIIRLRADLQ AIDSE+Y LAA 
Sbjct: 118 IAQQLREKLTEVEEESIRLQEGKRGSSAKSEAQDKGISIIRLRADLQNAIDSEDYGLAAK 177

Query: 180 LRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWM 239
           LRD+I KLEAESLA SA ALAFE A +AFRLGQK+ HK FGYRAV+CGMDP+C ESSSWM
Sbjct: 178 LRDEISKLEAESLAVSAKALAFEKAEYAFRLGQKLRHKTFGYRAVVCGMDPICSESSSWM 237

Query: 240 EIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           E A+VEKL +G +QPFYQVLVDV   P++LVAY
Sbjct: 238 EAAEVEKLPRGSNQPFYQVLVDVRTHPDLLVAY 270

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817996|ref|XP_002876881.1| hypothetical protein ARALYDRAFT_904615 [Arabidopsis lyrata subsp. lyrata] gi|297322719|gb|EFH53140.1| hypothetical protein ARALYDRAFT_904615 [Arabidopsis lyrata subsp. lyrata]

 Score =  330 bits (845), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 175/274 (63%), Positives = 203/274 (74%), Gaps = 5/274 (1%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNL 60
           MVQ  SLSTLT  G+       +L R      + S +  DR   C    +    R  +  
Sbjct: 1   MVQSQSLSTLTICGS---VKVSSLLRNRLNSSKASSLIGDRCVSCQFLRKSPSFRSHWKS 57

Query: 61  LRQRNL-RANAGWLFKGGS-DRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
           ++QRNL R  A W F+GG  ++GLD SSERSESANEDIL FFFQLDLATRVQ A+N+E+Y
Sbjct: 58  IKQRNLLRVEARWPFQGGGGEQGLDPSSERSESANEDILIFFFQLDLATRVQYAMNLEQY 117

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           DIAQQLR KLTEVEEE  R  E KRG S+KSEAQDK +SIIRLRADLQ AIDSE+Y LAA
Sbjct: 118 DIAQQLREKLTEVEEESIRLQEGKRGSSAKSEAQDKGISIIRLRADLQNAIDSEDYGLAA 177

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
            LRD+I KLEAESLA SA ALAFENA +AFRLGQK+ HK FGYRAV+CGMDP+CCESSSW
Sbjct: 178 KLRDEISKLEAESLAVSAKALAFENAEYAFRLGQKLRHKTFGYRAVVCGMDPICCESSSW 237

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           ME A+VEKL +G +QPFYQVLVD    P+++VAY
Sbjct: 238 MEAAEVEKLPRGSNQPFYQVLVDARTHPDLVVAY 271

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357487407|ref|XP_003613991.1| F-box only protein [Medicago truncatula] gi|355515326|gb|AES96949.1| F-box only protein [Medicago truncatula]

 Score =  327 bits (837), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 179/284 (63%), Positives = 219/284 (77%), Gaps = 10/284 (3%)

Query: 1   MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRI--GIDRPCFCHQFVQGL-HLRVT 57
           MVQ +SLSTL T G    YGSP      F+  ++S I     +    ++ V+ L  +   
Sbjct: 1   MVQGVSLSTLATCGKSRIYGSP------FEPFKQSHITSSTGKHLVWNKCVKSLVFIGYP 54

Query: 58  FNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEE 117
           F   ++   +  AGW+F+GG ++ LDAS E+SESANEDIL FFFQLDLATRVQCALNMEE
Sbjct: 55  FASRQRSGFKVEAGWMFRGG-EQELDASVEQSESANEDILMFFFQLDLATRVQCALNMEE 113

Query: 118 YDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALA 177
           YDIA+QLRNKLTEVEEE+ +Q ++KRG+SSKSEAQDKALS+IRLR+DLQ AI++E+YALA
Sbjct: 114 YDIAKQLRNKLTEVEEEVIKQKQSKRGMSSKSEAQDKALSVIRLRSDLQSAIENEDYALA 173

Query: 178 ADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSS 237
           A LRD+I KLEAESLAASA ALA ENA++ FRLGQKV HK+FGYRA+I GMDPVC ESSS
Sbjct: 174 AKLRDEISKLEAESLAASAKALAHENAQYVFRLGQKVKHKMFGYRAIIVGMDPVCSESSS 233

Query: 238 WMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT 281
           WME AQV+KL +G +QPFYQVLVDV A+P++LVAYG    + P 
Sbjct: 234 WMENAQVKKLSRGTAQPFYQVLVDVRAEPDLLVAYGKAGLVGPV 277

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356494893|ref|XP_003516316.1| PREDICTED: uncharacterized protein LOC100783767 [Glycine max]

 Score =  312 bits (800), Expect = 9e-83,   Method: Compositional matrix adjust.
 Identities = 163/214 (76%), Positives = 188/214 (87%), Gaps = 2/214 (0%)

Query: 60  LLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDIL-FFFFQLDLATRVQCALNMEEY 118
           L R    RA A W+F+GG ++GLD SSE SESANEDIL FFFFQLDLATRVQ ALNME+Y
Sbjct: 31  LTRHSGFRAEAAWMFRGG-EQGLDVSSEHSESANEDILMFFFFQLDLATRVQYALNMEQY 89

Query: 119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
           DIA+QLRNKL EVEEE+ +Q ++KRGLSSKSEAQDKA+SIIRL +DLQ AI++E+YALAA
Sbjct: 90  DIAKQLRNKLAEVEEEVIKQQQSKRGLSSKSEAQDKAISIIRLHSDLQNAIENEHYALAA 149

Query: 179 DLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
           +LRD+I KLEAESLAASA ALA ENA++AFRLGQKV HK FGY+AVICGMDPVC ESSSW
Sbjct: 150 ELRDEISKLEAESLAASAKALAHENAQYAFRLGQKVRHKKFGYKAVICGMDPVCSESSSW 209

Query: 239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           ME AQV+KL +G +QPFYQVLVDVHA+PN+LVAY
Sbjct: 210 MENAQVKKLSRGSAQPFYQVLVDVHAEPNLLVAY 243

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125527819|gb|EAY75933.1| hypothetical protein OsI_03852 [Oryza sativa Indica Group] gi|125572130|gb|EAZ13645.1| hypothetical protein OsJ_03562 [Oryza sativa Japonica Group]

 Score =  307 bits (786), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 150/209 (71%), Positives = 176/209 (84%), Gaps = 3/209 (1%)

Query: 65  NLRANAGWLFKGGSDRGL-DASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQ 123
            +R NA WLF GG DR   +A  ERSESANEDIL F+FQLDL TR+Q ALN+E++D+A+Q
Sbjct: 4   TVRTNAKWLF-GGDDRSSSNARLERSESANEDILIFYFQLDLQTRIQYALNIEQFDVAKQ 62

Query: 124 LRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQ 183
           LR KLTE+E EI RQ EAKRG SSK+EAQDKA++++R+RADLQKA+DSENYALAA LRD+
Sbjct: 63  LREKLTEIETEIIRQREAKRG-SSKTEAQDKAINLLRVRADLQKAVDSENYALAAALRDE 121

Query: 184 ICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQ 243
           I KLE ESLA SA ALA++N  +AFRLGQKV HK+ GYRAVICGMDPVCCES SWME A 
Sbjct: 122 IAKLETESLAVSAKALAYQNVEYAFRLGQKVRHKVHGYRAVICGMDPVCCESKSWMETAN 181

Query: 244 VEKLQQGPSQPFYQVLVDVHADPNILVAY 272
           VE L +GP+QPFYQVLVDV+ADP +LVAY
Sbjct: 182 VENLSKGPNQPFYQVLVDVYADPELLVAY 210

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	282
TAIR|locus:2063761	330	AT2G03390 [Arabidopsis thalian	0.950	0.812	0.605	7.3e-75
UNIPROTKB|F1NDZ7	612	FBXO21 "Uncharacterized protei	0.191	0.088	0.444	2e-06
UNIPROTKB|H0YHF6	225	FBXO21 "F-box only protein 21"	0.191	0.24	0.407	4.7e-05
UNIPROTKB|H0YIE9	505	FBXO21 "F-box only protein 21"	0.191	0.106	0.407	6e-05
RGD|1307346	572	Fbxo21 "F-box protein 21" [Rat	0.191	0.094	0.407	6.4e-05
MGI|MGI:1924223	627	Fbxo21 "F-box protein 21" [Mus	0.191	0.086	0.407	8.2e-05
UNIPROTKB|E9PTD1	627	Fbxo21 "Protein Fbxo21" [Rattu	0.191	0.086	0.407	8.2e-05
UNIPROTKB|E2RKH1	620	FBXO21 "Uncharacterized protei	0.191	0.087	0.407	0.00011
UNIPROTKB|F1RKE9	627	FBXO21 "Uncharacterized protei	0.191	0.086	0.407	0.00011
UNIPROTKB|O94952	628	FBXO21 "F-box only protein 21"	0.191	0.085	0.407	0.00011

TAIR|locus:2063761 AT2G03390 [Arabidopsis thaliana (taxid:3702)]

 Score = 755 (270.8 bits), Expect = 7.3e-75, P = 7.3e-75
 Identities = 166/274 (60%), Positives = 191/274 (69%)

Query:     1 MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQ-GLHLRVTFN 59
             MVQ  SLSTLT  G+     S  L  R   +   S IG DR C   QF++     R  + 
Sbjct:     1 MVQSQSLSTLTICGSVKV--SSLLRNRLNSVKASSLIG-DR-CVSCQFLRKSPSFRSHWK 56

Query:    60 LLRQRNL-RANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEY 118
              L+QRNL R  A W F+GG ++GLD SSERSESANEDIL FFFQLDLATRVQ A+N+E+Y
Sbjct:    57 SLKQRNLLRVEARWPFQGGGEQGLDPSSERSESANEDILIFFFQLDLATRVQYAMNLEQY 116

Query:   119 DIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAA 178
             DIAQQLR KLTEVEEE  R  E KRG S+KSEAQDK +SIIRLRADLQ AIDSE+Y LAA
Sbjct:   117 DIAQQLREKLTEVEEESIRLQEGKRGSSAKSEAQDKGISIIRLRADLQNAIDSEDYGLAA 176

Query:   179 DLRDQICKXXXXXXXXXXXXXXXXXXRFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSW 238
              LRD+I K                   +AFRLGQK+ HK FGYRAV+CGMDP+C ESSSW
Sbjct:   177 KLRDEISKLEAESLAVSAKALAFEKAEYAFRLGQKLRHKTFGYRAVVCGMDPICSESSSW 236

Query:   239 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAY 272
             ME A+VEKL +G +QPFYQVLVDV   P++LVAY
Sbjct:   237 MEAAEVEKLPRGSNQPFYQVLVDVRTHPDLLVAY 270

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

GO:0004518 "nuclease activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006289 "nucleotide-excision repair" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

UNIPROTKB|F1NDZ7 FBXO21 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 130 (50.8 bits), Expect = 2.0e-06, Sum P(2) = 2.0e-06
 Identities = 24/54 (44%), Positives = 29/54 (53%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             F +G  + HK +GY  VI G DP C     W+    V  L  GP QPFY VLV+
Sbjct:   477 FSIGLIMKHKRYGYNCVIYGWDPACMMGHEWIRNMNVHSLPHGPHQPFYNVLVE 530

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|H0YHF6 FBXO21 "F-box only protein 21" [Homo sapiens (taxid:9606)]

 Score = 118 (46.6 bits), Expect = 4.7e-05, P = 4.7e-05
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   155 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 208

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|H0YIE9 FBXO21 "F-box only protein 21" [Homo sapiens (taxid:9606)]

 Score = 118 (46.6 bits), Expect = 6.0e-05, Sum P(2) = 6.0e-05
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   380 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 433

GO:0003677 "DNA binding" evidence=IEA

RGD|1307346 Fbxo21 "F-box protein 21" [Rattus norvegicus (taxid:10116)]

 Score = 119 (46.9 bits), Expect = 6.4e-05, Sum P(2) = 6.4e-05
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   448 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 501

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1924223 Fbxo21 "F-box protein 21" [Mus musculus (taxid:10090)]

 Score = 119 (46.9 bits), Expect = 8.2e-05, Sum P(2) = 8.2e-05
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   503 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|E9PTD1 Fbxo21 "Protein Fbxo21" [Rattus norvegicus (taxid:10116)]

 Score = 119 (46.9 bits), Expect = 8.2e-05, Sum P(2) = 8.2e-05
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   503 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E2RKH1 FBXO21 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 118 (46.6 bits), Expect = 0.00011, Sum P(2) = 0.00011
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   496 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 549

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F1RKE9 FBXO21 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 118 (46.6 bits), Expect = 0.00011, Sum P(2) = 0.00011
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   503 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|O94952 FBXO21 "F-box only protein 21" [Homo sapiens (taxid:9606)]

 Score = 118 (46.6 bits), Expect = 0.00011, Sum P(2) = 0.00011
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+
Sbjct:   503 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE 556

GO:0003677 "DNA binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=NAS

GO:0004842 "ubiquitin-protein ligase activity" evidence=NAS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=NAS

GO:0016567 "protein ubiquitination" evidence=NAS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	282
pfam08755	100	pfam08755, YccV-like, Hemimethylated DNA-binding p	2e-20
TIGR02097	101	TIGR02097, yccV, hemimethylated DNA binding domain	4e-19
smart00992	98	smart00992, YccV-like, Hemimethylated DNA-binding	8e-11
COG3785	116	COG3785, COG3785, Uncharacterized conserved protei	7e-06
pfam02151	36	pfam02151, UVR, UvrB/uvrC motif	6e-05
COG0556	663	COG0556, UvrB, Helicase subunit of the DNA excisio	6e-05
PRK14129	105	PRK14129, PRK14129, heat shock protein HspQ; Provi	4e-04
PRK05298	652	PRK05298, PRK05298, excinuclease ABC subunit B; Pr	0.003

>gnl|CDD|220004 pfam08755, YccV-like, Hemimethylated DNA-binding protein YccV like

 Score = 83.4 bits (207), Expect = 2e-20
 Identities = 28/65 (43%), Positives = 36/65 (55%), Gaps = 3/65 (4%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
           FR+GQ V H++FGYR VI  +DP    S  W E    ++      QPFY VLV+   D +
Sbjct: 4   FRIGQVVRHRLFGYRGVIFDVDPEFAASEEWYEAIPEDRR-PARDQPFYHVLVED--DDS 60

Query: 268 ILVAY 272
             VAY
Sbjct: 61  SYVAY 65

YccV is a hemimethylated DNA binding protein which has been shown to regulate dnaA gene expression. The structure of one of the hypothetical proteins in this family has been solved and it forms a beta sheet structure with a terminating alpha helix. Length = 100

>gnl|CDD|131152 TIGR02097, yccV, hemimethylated DNA binding domain

 Score = 80.1 bits (198), Expect = 4e-19
 Identities = 26/66 (39%), Positives = 34/66 (51%), Gaps = 2/66 (3%)

Query: 207 AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADP 266
            FR+GQ V HK+FGYR V+  +DP    +  W++   VE       QPFY VL +     
Sbjct: 3   KFRIGQVVRHKLFGYRGVVIDVDPEYSNTEEWLDAIPVEIRPLR-DQPFYHVLAEDDEGL 61

Query: 267 NILVAY 272
              VAY
Sbjct: 62  PY-VAY 66

This model describes the small protein from E. coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein. The model also describes a domain in longer eukaryotic proteins. Length = 101

>gnl|CDD|214961 smart00992, YccV-like, Hemimethylated DNA-binding protein YccV like

 Score = 57.2 bits (139), Expect = 8e-11
 Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGP--SQPFYQVLVD 261
           FR+GQ V HK+FGYR V+   DP    +  W +    +     P   QPFY VLV+
Sbjct: 4   FRIGQVVRHKLFGYRGVVFDWDPEFANTEEWYDEIPED---SRPPRDQPFYHVLVE 56

YccV is a hemimethylated DNA binding protein which has been shown to regulate dnaA gene expression. The structure of one of the hypothetical proteins in this family has been solved and it forms a beta sheet structure with a terminating alpha helix. Length = 98

>gnl|CDD|226308 COG3785, COG3785, Uncharacterized conserved protein [Function unknown]

 Score = 44.0 bits (104), Expect = 7e-06
 Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
           F +GQ V H++F +R V+  +DP    +  W +   V        QPFY +L +   D  
Sbjct: 15  FGIGQVVRHRLFPFRGVVFDVDPEYANTEEWPDEIPVNIRPL-RDQPFYHLLAE--NDET 71

Query: 268 ILVAY 272
             VAY
Sbjct: 72  EYVAY 76

Length = 116

>gnl|CDD|145355 pfam02151, UVR, UvrB/uvrC motif

 Score = 39.3 bits (93), Expect = 6e-05
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE 190
           I  L  ++++A + E++  AA LRDQI  LE +
Sbjct: 4   IKELEEEMEEAAEEEDFEKAAKLRDQIKALEKQ 36

Length = 36

>gnl|CDD|223630 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

 Score = 43.7 bits (104), Expect = 6e-05
 Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 5/92 (5%)

Query: 108 RVQCALNMEEYDIAQQLRNK----LTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRA 163
            +Q A N EE+ I  Q   K    + + E E           +SK   ++    I +L  
Sbjct: 573 EIQMAYN-EEHGITPQTIKKKIRDILDGEYEEDEYKAKIEKKASKMSKKELEKLIKKLEK 631

Query: 164 DLQKAIDSENYALAADLRDQICKLEAESLAAS 195
           ++++A  +  +  AA LRD+I +L+ E L  S
Sbjct: 632 EMKEAAKNLEFEEAARLRDEIKELKEELLGKS 663

Length = 663

>gnl|CDD|184526 PRK14129, PRK14129, heat shock protein HspQ; Provisional

 Score = 38.5 bits (90), Expect = 4e-04
 Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 4/55 (7%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPV-CCESSSWMEIAQVEKLQQGPSQPFYQVLVD 261
           F +GQ+V H + GY  V+  +DP    E  S  E+A  ++L+   + P+Y V+++
Sbjct: 6   FGIGQQVRHSLLGYLGVVVDIDPEYSLEEPSPDELAVNDELR---AAPWYHVVME 57

Length = 105

>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional

 Score = 38.9 bits (92), Expect = 0.003
 Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 134 EISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLA 193
           +I   L++       S+ + + L I  L   +++A  +  +  AA LRD+I +L+ E L 
Sbjct: 592 KIRDILDSVYKKDKLSKKELEKL-IKELEKQMKEAAKNLEFEEAARLRDEIKELKEELLG 650

Query: 194 AS 195
            S
Sbjct: 651 LS 652

Length = 652

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	282
TIGR02097	101	yccV hemimethylated DNA binding domain. This model	99.95
PF08755	100	YccV-like: Hemimethylated DNA-binding protein YccV	99.94
PRK14129	105	heat shock protein HspQ; Provisional	99.85
COG3785	116	Uncharacterized conserved protein [Function unknow	99.73
COG3880	176	Modulator of heat shock repressor CtsR, McsA [Sign	99.62
PF02151	36	UVR: UvrB/uvrC motif; InterPro: IPR001943 During t	98.11
KOG4408	386	consensus Putative Mg2+ and Co2+ transporter CorD	96.47
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	95.83
PRK00558	598	uvrC excinuclease ABC subunit C; Validated	94.76
PRK05298	652	excinuclease ABC subunit B; Provisional	94.32
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	94.25
PRK12306	519	uvrC excinuclease ABC subunit C; Reviewed	92.96
PRK07883	557	hypothetical protein; Validated	92.84
PRK14672	691	uvrC excinuclease ABC subunit C; Provisional	92.68
TIGR00194	574	uvrC excinuclease ABC, C subunit. This family cons	92.57
PRK14666	694	uvrC excinuclease ABC subunit C; Provisional	92.47
PRK14669	624	uvrC excinuclease ABC subunit C; Provisional	91.81
PRK14668	577	uvrC excinuclease ABC subunit C; Provisional	91.07
PRK14667	567	uvrC excinuclease ABC subunit C; Provisional	90.69
PRK14671	621	uvrC excinuclease ABC subunit C; Provisional	90.56
PRK14670	574	uvrC excinuclease ABC subunit C; Provisional	90.43
COG0322	581	UvrC Nuclease subunit of the excinuclease complex	89.9
PF04420	161	CHD5: CHD5-like protein; InterPro: IPR007514 Membe	83.72

>TIGR02097 yccV hemimethylated DNA binding domain

Probab=99.95  E-value=2.8e-28  Score=197.69  Aligned_cols=74  Identities=36%  Similarity=0.603  Sum_probs=67.8

Q ss_pred             cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT  281 (282)
Q Consensus       206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~  281 (282)
                      ++|+||||||||+|||+|||+||||.|.++++|+++|.++..+. ++|||||||+++++... .++||||+||+++
T Consensus         2 ~kf~IGqvvrHr~~~yrGVI~gwDp~~~~~eeW~~~~~~~~~p~-~~qPfYhvLv~~~~~~~-~~aYVaE~nL~~~   75 (101)
T TIGR02097         2 AKFRIGQVVRHKLFGYRGVVIDVDPEYSNTEEWLDAIPVEIRPL-RDQPFYHVLAEDDEGLP-YVAYVAEQNLLYD   75 (101)
T ss_pred             ceecCCCEEEecccCCCEEEEeEChhccCChHHHHhhhcccCcc-cCCCceEEEEeCCCCcc-eeEEeehhhcccC
Confidence            68999999999999999999999999999999999999887666 99999999999865433 8999999999985

This model describes the small protein from E. coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein. The model also describes a domain in longer eukaryotic proteins.

>PF08755 YccV-like: Hemimethylated DNA-binding protein YccV like; InterPro: IPR011722 This entry describes the small protein from Escherichia coli YccV and its homologs in other Proteobacteria

Probab=99.94  E-value=3e-28  Score=195.55  Aligned_cols=73  Identities=42%  Similarity=0.772  Sum_probs=37.5

Q ss_pred             cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT  281 (282)
Q Consensus       206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~  281 (282)
                      ++|+|||||+||+|||+|||+|||+.|.++++|+.+++++.++. ++||||+||+|++|+  ...+||||+||+++
T Consensus         2 ~~f~vGqvv~Hr~~~y~GVIvgwD~~~~~~~~W~~~~~~~~~~~-~~qPfY~vLv~~~~~--~~~~YVaEenL~~~   74 (100)
T PF08755_consen    2 VKFRVGQVVRHRRYGYRGVIVGWDPECQAPEEWIEQMGVDNLPR-RNQPFYHVLVDDRDS--PPVRYVAEENLEPD   74 (100)
T ss_dssp             -SS-TT-EEEETTT--EEEEEEEE-------------------------EEEEEEE-SS----EEEEEEGGGEEE-
T ss_pred             cccccCCEEEEeeeCccEEEECcccccCCCchHHHhcccccccc-CCCCcEEEEEecCCc--cceEEecccccccC
Confidence            68999999999999999999999999999999999999887766 999999999999755  35599999999765

YccV is now described as a hemimethylated DNA binding protein []. The model entry describes a domain in longer eukaryotic proteins.; PDB: 1VBV_A.

>PRK14129 heat shock protein HspQ; Provisional

Probab=99.85  E-value=1.2e-21  Score=159.52  Aligned_cols=73  Identities=23%  Similarity=0.409  Sum_probs=63.3

Q ss_pred             cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT  281 (282)
Q Consensus       206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~  281 (282)
                      -||.|||+||||.|||||||++.||.|..+++|.+.+..+  .+.++|||||||+++. ++...++||||.||.++
T Consensus         4 akF~IGQ~VrHrl~~yrGVV~DVDP~fs~~e~w~~~ia~~--~p~kdqPwYHvl~en~-~~~~v~tYVaE~nL~~d   76 (105)
T PRK14129          4 SKFGIGQQVRHSLLGYLGVVVDIDPEYSLEEPSPDELAVN--DELRAAPWYHVVMEDD-DGQPVHTYLAEAQLSSE   76 (105)
T ss_pred             ccccCCcEEEEeecCCCeEEEeeCCCcCCCchhHHhhccC--CCccCCCceEEEEEcC-CCceEEEEeeecccCCC
Confidence            4799999999999999999999999999999999988654  4668999999999763 33345599999999986

>COG3785 Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=1.3e-18  Score=142.41  Aligned_cols=74  Identities=28%  Similarity=0.513  Sum_probs=65.7

Q ss_pred             ccccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428          205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT  281 (282)
Q Consensus       205 ~vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~  281 (282)
                      .-||.|||+|||+.|+|+|||++.||.+...++|.+....+. ++.++|||||+|.++.+  .+.++||+|.||..+
T Consensus        12 ~aKF~IGQvVRHrlfpfrGVV~DvDPeyanteew~~~ip~~~-rp~rdqPfYHllaEnde--~~yvaYvsEqnL~~d   85 (116)
T COG3785          12 AAKFGIGQVVRHRLFPFRGVVFDVDPEYANTEEWPDEIPVNI-RPLRDQPFYHLLAENDE--TEYVAYVSEQNLVSD   85 (116)
T ss_pred             HhhcchhhhhhhhhcccceEEEecCcccccCccChhhccccc-cccccCCceeeeeecCC--ccceeeehhhhcccc
Confidence            357999999999999999999999999999999999986554 57789999999998843  679999999999764

>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]

Probab=99.62  E-value=2.1e-16  Score=138.47  Aligned_cols=96  Identities=23%  Similarity=0.270  Sum_probs=85.6

Q ss_pred             ccccceeeeeeeecccccccccccHHHHHHHHHHHHHHHHHHHH-HHHHHhhhcCCCcchhHHHHHHHHHHHHHHHHHhh
Q 023428           91 SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEE-ISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAI  169 (282)
Q Consensus        91 ~~~~~~~~f~~q~~~~~rlgc~~~y~~f~~a~~l~~~l~~v~~~-~~~~~~gK~~~~~~~ea~d~a~qL~~Lk~~Lq~AI  169 (282)
                      ++=+---+=|=||...||+||+.||..|..  .|-|.+.+|+++ +  .|+||+| .+....+..+.+|..|+..|+++|
T Consensus        75 l~C~~C~~Tfk~f~~~g~fGCaeCY~tf~~--~i~pi~~rvq~g~~--~H~GK~P-~~~~~~i~~~~~I~~L~e~Lq~~i  149 (176)
T COG3880          75 LGCHNCGMTFKEFIQSGLFGCAECYKTFES--QISPIITRVQGGYV--EHVGKVP-KRIGRKINPKRKIIALKEALQDLI  149 (176)
T ss_pred             hcCccccccHHHHHHhcccchHHHHHHHHH--HhhHHHHHhhCCce--eecCcCc-ccccccccHHHHHHHHHHHHHHHH
Confidence            444444466778999999999999999995  999999999998 7  5699999 667777899999999999999999


Q ss_pred             chhcHHHHHHHHHHHhhHHHhH
Q 023428          170 DSENYALAADLRDQICKLEAES  191 (282)
Q Consensus       170 e~EeyE~AA~lRD~Ik~Le~e~  191 (282)
                      +.||||+||.+||+||.|+++.
T Consensus       150 ~~EefEeAA~iRDqIr~Lk~k~  171 (176)
T COG3880         150 EREEFEEAAVIRDQIRALKAKN  171 (176)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999873

>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []

Probab=98.11  E-value=4.7e-06  Score=55.95  Aligned_cols=34  Identities=35%  Similarity=0.556  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       157 qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      .|..|+.+|..|++.++||+||.+||+|..|+.+
T Consensus         3 ~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~q   36 (36)
T PF02151_consen    3 LIKELEEKMEEAVENEDFEKAARLRDQIKALKKQ   36 (36)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHcC
Confidence            5778999999999999999999999999999864

UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.

>KOG4408 consensus Putative Mg2+ and Co2+ transporter CorD [Inorganic ion transport and metabolism]

Probab=96.47  E-value=0.0016  Score=63.62  Aligned_cols=64  Identities=22%  Similarity=0.370  Sum_probs=43.1

Q ss_pred             ccccccccCceEEeeecCeeEEE-Eccccccc-----------------CChhhHHhhhhc-------------ccCCCC
Q 023428          203 NARFAFRLGQKVNHKIFGYRAVI-CGMDPVCC-----------------ESSSWMEIAQVE-------------KLQQGP  251 (282)
Q Consensus       203 ~~~vkFrIGQVvrHRryGYrGVI-vGWD~~c~-----------------a~eeW~~~~~v~-------------~l~~gr  251 (282)
                      +..-+|.-||.|+|+.|||+||| ..|+..-.                 +.++=.+.....             +...|+
T Consensus        62 ~~~~~~etgqsF~h~~f~yvgvv~~~w~arlk~wd~ln~~~~~aal~ega~e~dl~a~e~s~~~kLp~~~r~~yrev~Gq  141 (386)
T KOG4408|consen   62 EKTQKYETGQSFLHDTFGYVGVVLFPWAARLKDWDDLNKYLEPAALKEGAREPDLDAVEASIGCKLPDDYRCSYREVKGQ  141 (386)
T ss_pred             ccCCcccccceeeeeecccceEEEEechHhhhhhhhcccccccchhhccCcccchhhhhhcccccCCCccccchhhcCCe
Confidence            34458999999999999999998 57877321                 111100011000             335788


Q ss_pred             CCCcEEEEEecCCCC
Q 023428          252 SQPFYQVLVDVHADP  266 (282)
Q Consensus       252 ~QPFY~VLVd~rD~~  266 (282)
                      .+.||+||++.+|++
T Consensus       142 ~l~~yqvLi~~~d~s  156 (386)
T KOG4408|consen  142 TLTFYQVLIDMRDCS  156 (386)
T ss_pred             EEeehheeeecccCc
Confidence            999999999998865

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

Probab=95.83  E-value=0.021  Score=59.18  Aligned_cols=44  Identities=27%  Similarity=0.374  Sum_probs=39.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428          149 SEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (282)
Q Consensus       149 ~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~  192 (282)
                      ....+.+..|.+|+.+|++|-++-+||+||++||+|++|+++..
T Consensus       617 ~~~~e~~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~~~  660 (663)
T COG0556         617 MSKKELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEELL  660 (663)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhc
Confidence            45667788899999999999999999999999999999998754

>PRK00558 uvrC excinuclease ABC subunit C; Validated

Probab=94.76  E-value=0.048  Score=56.45  Aligned_cols=36  Identities=25%  Similarity=0.307  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428          157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (282)
Q Consensus       157 qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~  192 (282)
                      -+..|+.+|++|.++.+||+||++||+|+.|+.-..
T Consensus       203 ~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~~~~~  238 (598)
T PRK00558        203 VLKELEEKMEEASENLEFERAARYRDQIQALRRVQE  238 (598)
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHh
Confidence            466799999999999999999999999999997544

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=94.32  E-value=0.064  Score=55.77  Aligned_cols=40  Identities=30%  Similarity=0.378  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (282)
Q Consensus       153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~  192 (282)
                      .....+..|+.+|++|.+..+||+||++||+|+.|+..+.
T Consensus       610 ~~~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~i~~l~~~~~  649 (652)
T PRK05298        610 ELEKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKEELL  649 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhc
Confidence            4445677899999999999999999999999999997654

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=94.25  E-value=0.049  Score=56.92  Aligned_cols=36  Identities=28%  Similarity=0.399  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHH
Q 023428          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLE  188 (282)
Q Consensus       153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le  188 (282)
                      +....|..|+.+|++|.++.+||+||++||+|+.|+
T Consensus       620 ~~~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L~  655 (655)
T TIGR00631       620 ELKKLIKQLEKEMKQAARNLEFEEAARLRDEILELK  655 (655)
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            445567789999999999999999999999999874

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)

>PRK12306 uvrC excinuclease ABC subunit C; Reviewed

Probab=92.96  E-value=0.16  Score=51.98  Aligned_cols=33  Identities=21%  Similarity=0.382  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus       194 ~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~~  226 (519)
T PRK12306        194 IEKLEEEMAEKAKNQQFERALVIRDEINAIENL  226 (519)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            556889999999999999999999999999863

>PRK07883 hypothetical protein; Validated

Probab=92.84  E-value=0.12  Score=53.14  Aligned_cols=34  Identities=29%  Similarity=0.436  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~  191 (282)
                      +.+|+.+|++|-++.+||+||++||+|..|+.=.
T Consensus       408 ~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~  441 (557)
T PRK07883        408 LAALRARIDRLAAAERFEEAARLRDRLAALLRAL  441 (557)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            5578999999999999999999999999998643

>PRK14672 uvrC excinuclease ABC subunit C; Provisional

Probab=92.68  E-value=0.18  Score=53.45  Aligned_cols=33  Identities=27%  Similarity=0.507  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +..|+.+|++|-+..+||+||++||+|+.|+.=
T Consensus       207 l~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~~~  239 (691)
T PRK14672        207 VARLEKRMKRAVRQEAFEAAARIRDDIQAIRCI  239 (691)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence            457899999999999999999999999999853

>TIGR00194 uvrC excinuclease ABC, C subunit

Probab=92.57  E-value=0.21  Score=51.73  Aligned_cols=33  Identities=30%  Similarity=0.427  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +.+|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus       196 ~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~  228 (574)
T TIGR00194       196 IKELEQKMEKASENLEFEEAARIRDQIAAVREL  228 (574)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            556889999999999999999999999999864

This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.

>PRK14666 uvrC excinuclease ABC subunit C; Provisional

Probab=92.47  E-value=0.22  Score=52.78  Aligned_cols=35  Identities=31%  Similarity=0.387  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~  192 (282)
                      +..|+.+|++|-++.+||+||++||+|+.|+.-..
T Consensus       203 ~~~L~~~M~~AAe~l~FE~AA~lRD~i~aL~~~~~  237 (694)
T PRK14666        203 VDALRTEMEAASEALEFERAAVLRDQIRAVERTVE  237 (694)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence            55689999999999999999999999999987443

>PRK14669 uvrC excinuclease ABC subunit C; Provisional

Probab=91.81  E-value=0.29  Score=51.20  Aligned_cols=33  Identities=33%  Similarity=0.369  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +..|+.+|+.|-++.+||+||++||+|+.|+.=
T Consensus       205 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~  237 (624)
T PRK14669        205 ARSLRARMEAAALEMQFELAAKYRDLITTVEEL  237 (624)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence            457899999999999999999999999998864

>PRK14668 uvrC excinuclease ABC subunit C; Provisional

Probab=91.07  E-value=0.24  Score=51.30  Aligned_cols=33  Identities=30%  Similarity=0.442  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus       201 ~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~~~  233 (577)
T PRK14668        201 ADPLRREMEAAAQAQEFERAANLRDRLEAVEAF  233 (577)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            557899999999999999999999999999864

>PRK14667 uvrC excinuclease ABC subunit C; Provisional

Probab=90.69  E-value=0.28  Score=50.84  Aligned_cols=34  Identities=26%  Similarity=0.250  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~  191 (282)
                      +..|+.+|+.|-++.+||+||++||+|+.|+.=.
T Consensus       201 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~  234 (567)
T PRK14667        201 LPELYDKIEEYSQKLMFEKAAVIRDQILALENLI  234 (567)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            5578999999999999999999999999988643

>PRK14671 uvrC excinuclease ABC subunit C; Provisional

Probab=90.56  E-value=0.29  Score=51.17  Aligned_cols=33  Identities=33%  Similarity=0.430  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +..|+.+|++|-++.+||+||++||+|+.|+.=
T Consensus       217 ~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~~~  249 (621)
T PRK14671        217 IRSLTEEMQRAAAELKFEEAAELKDQIESLKRY  249 (621)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            557899999999999999999999999999863

>PRK14670 uvrC excinuclease ABC subunit C; Provisional

Probab=90.43  E-value=0.3  Score=50.67  Aligned_cols=34  Identities=21%  Similarity=0.355  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~  191 (282)
                      +..|+.+|+.|-++.+||+||++||+|..|+.=.
T Consensus       179 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~~~~  212 (574)
T PRK14670        179 LSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEIS  212 (574)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            5578999999999999999999999999998743

>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]

Probab=89.90  E-value=0.59  Score=48.67  Aligned_cols=73  Identities=23%  Similarity=0.214  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHh--HhhHhh-hhccccccccccCceEEeeecCeeEEEEcccc
Q 023428          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL--AASATA-LAFENARFAFRLGQKVNHKIFGYRAVICGMDP  230 (282)
Q Consensus       158 L~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~--aasa~~-~~~~~~~vkFrIGQVvrHRryGYrGVIvGWD~  230 (282)
                      +..|++++++|-+..+||.||++||.|..|+.=..  +++... ....--...+.-|....+..+-..|-++|=+.
T Consensus       204 ~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~l~~~q~v~~~~~~~~Dv~a~~~~~~~~~v~vf~~R~Gkllg~~~  279 (581)
T COG0322         204 LQELEEKMEEASENLDFERAARLRDQIKALEKLQEKQAVSLFKLQDLDVIAGAVDGGEACVQVFFVRGGKLLGRRA  279 (581)
T ss_pred             HHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhccccccCCccchhhheeeecCCeEEEEEEEeecchhcCCcc
Confidence            55788999999999999999999999999986332  111110 01111122344444555555555577776554

>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein

Probab=83.72  E-value=3  Score=36.27  Aligned_cols=47  Identities=23%  Similarity=0.295  Sum_probs=39.5

Q ss_pred             chhHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhHh
Q 023428          148 KSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAA  194 (282)
Q Consensus       148 ~~ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~aa  194 (282)
                      ..+-.....|+.++++++...=..+||.+.|+++-++.++++|+++.
T Consensus        39 ~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~   85 (161)
T PF04420_consen   39 SKEQRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKL   85 (161)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556777889999999999888999999999999999999998743

The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	282
1vbv_A	105	Hypothetical protein B0966; protein degradation, s	3e-16

>1vbv_A Hypothetical protein B0966; protein degradation, structural genomics, unknown function; 2.70A {Escherichia coli} SCOP: b.34.17.1 Length = 105

 Score = 71.9 bits (176), Expect = 3e-16
 Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
           F +GQ+V H + GY  V+  +DPV   S    +   V       + P+Y V+++   +  
Sbjct: 6   FGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVNDE--LRAAPWYHVVME-DDNGL 62

Query: 268 ILVAY 272
            +  Y
Sbjct: 63  PVHTY 67

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	282
1vbv_A	105	Hypothetical protein B0966; protein degradation, s	99.94
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	97.86
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	96.15
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	95.38
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	81.94

>1vbv_A Hypothetical protein B0966; protein degradation, structural genomics, unknown function; 2.70A {Escherichia coli} SCOP: b.34.17.1

Probab=99.94  E-value=1.1e-27  Score=193.63  Aligned_cols=74  Identities=24%  Similarity=0.394  Sum_probs=50.0

Q ss_pred             ccccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccC
Q 023428          205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPT  281 (282)
Q Consensus       205 ~vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~  281 (282)
                      .++|+|||||+||+|||+|||+||||.|+++++|+..+..+  .++++|||||||++++| +....+||||+||+++
T Consensus         3 ~~kf~IGqvvrHr~~gyrGVI~d~Dp~~~~~eew~~~~~~~--~~~~~QPfYhVL~e~~~-~~~~~~YVaEenL~~~   76 (105)
T 1vbv_A            3 ASKFGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVN--DELRAAPWYHVVMEDDN-GLPVHTYLAEAQLSSE   76 (105)
T ss_dssp             CCSSCTTCEEEETTTCCEEEEEEEECC--------------------CCCEEEEEEECSS-CCEEEEEEEGGGEEEC
T ss_pred             cceecCCCEEEecccCCCEEEEeECcccCCCHHHHHhcccc--CccCCCCceEEEEeCCC-CceeeeEEcHHhcccc
Confidence            57899999999999999999999999999999999999766  46899999999999764 3345599999999864

>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*

Probab=96.15  E-value=0.0031  Score=63.39  Aligned_cols=38  Identities=24%  Similarity=0.467  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHh
Q 023428          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (282)
Q Consensus       153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e  190 (282)
                      +....|.+|+.+|++|.++++||+||++||+|++|+.+
T Consensus       623 ~~~~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~~  660 (661)
T 2d7d_A          623 ERQKVVEQMEHEMKEAAKALDFERAAELRDLLLELKAE  660 (661)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHhc
Confidence            45566888999999999999999999999999999864

>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*

Probab=95.38  E-value=0.0027  Score=63.84  Aligned_cols=39  Identities=33%  Similarity=0.378  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhH
Q 023428          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (282)
Q Consensus       153 d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~  191 (282)
                      +....|.+|+.+|++|.++++||+||++||+|++|++++
T Consensus       608 ~~~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~~  646 (664)
T 1c4o_A          608 DLRERIAELELAMWQAAEALDFERAARLRDEIRALEARL  646 (664)
T ss_dssp             ---------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence            345567889999999999999999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=81.94  E-value=3.6  Score=39.14  Aligned_cols=44  Identities=20%  Similarity=0.300  Sum_probs=37.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhH
Q 023428          150 EAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLA  193 (282)
Q Consensus       150 ea~d~a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~a  193 (282)
                      +-.+...+|.+++.+...++..++|++|+++++++.+|++++..
T Consensus       395 ~i~~l~~~i~~l~~~~~~~~~~~d~~~~~~l~~~~~~~~~~~~~  438 (468)
T 3pxg_A          395 NLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVED  438 (468)
T ss_dssp             STHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHH
Confidence            33456677888999999999999999999999999999998873

---

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	282
d1vbva1	95	b.34.17.1 (A:3-97) Hypothetical protein YccV {Esch	4e-17
d1e52a_	56	a.2.9.1 (A:) C-terminal UvrC-binding domain of Uvr	6e-04

>d1vbva1 b.34.17.1 (A:3-97) Hypothetical protein YccV {Escherichia coli [TaxId: 562]} Length = 95

class: All beta proteins
fold: SH3-like barrel
superfamily: YccV-like
family: YccV-like
domain: Hypothetical protein YccV
species: Escherichia coli [TaxId: 562]

 Score = 72.6 bits (178), Expect = 4e-17
 Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
           F +GQ+V H + GY  V+  +DPV   S    +   V    +  + P+Y V+++   +  
Sbjct: 4   FGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVNDELR--AAPWYHVVME-DDNGL 60

Query: 268 ILVAY 272
            +  Y
Sbjct: 61  PVHTY 65

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]} Length = 56

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

 Score = 35.1 bits (81), Expect = 6e-04
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESLAAS 195
           I  L   + +   +  +  AA +RDQ+ +L    +AAS
Sbjct: 19  IHELEGLMMQHAQNLEFEEAAQIRDQLHQLRELFIAAS 56

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	282
d1vbva1	95	Hypothetical protein YccV {Escherichia coli [TaxId	99.95
d1e52a_	56	C-terminal UvrC-binding domain of UvrB {Escherichi	98.0

>d1vbva1 b.34.17.1 (A:3-97) Hypothetical protein YccV {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: SH3-like barrel
superfamily: YccV-like
family: YccV-like
domain: Hypothetical protein YccV
species: Escherichia coli [TaxId: 562]

Probab=99.95  E-value=3.4e-29  Score=198.02  Aligned_cols=74  Identities=24%  Similarity=0.393  Sum_probs=50.5

Q ss_pred             cccccCceEEeeecCeeEEEEcccccccCChhhHHhhhhcccCCCCCCCcEEEEEecCCCCCceeEEeeCCCcccCC
Q 023428          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYGNCISLDPTP  282 (282)
Q Consensus       206 vkFrIGQVvrHRryGYrGVIvGWD~~c~a~eeW~~~~~v~~l~~gr~QPFY~VLVd~rD~~~~~~~YVAEENLe~~p  282 (282)
                      .||+|||||+||+|||+|||+||||.|.++++|+.++..+.  ++++||||||||+++|. .+.++||||+||++++
T Consensus         2 aKF~IGqivrHr~~~yrGVI~~wDp~~~~~~eW~~~~~~~~--~~r~QPfYhvLv~~~~~-~~~~tYVaEeNL~~d~   75 (95)
T d1vbva1           2 SKFGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVND--ELRAAPWYHVVMEDDNG-LPVHTYLAEAQLSSEL   75 (95)
T ss_dssp             CSSCTTCEEEETTTCCEEEEEEEECC--------------------CCCEEEEEEECSSC-CEEEEEEEGGGEEECC
T ss_pred             CccccCcEEEEeecCcCEEEEeeEEEecCCHHHHHhccccC--CCCCCCcEEEEEEcCCC-cEEEEEecchhcccCC
Confidence            47999999999999999999999999999999999998775  45799999999998643 4578999999998753

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

Probab=98.00  E-value=2.7e-06  Score=60.15  Aligned_cols=40  Identities=25%  Similarity=0.296  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHhhchhcHHHHHHHHHHHhhHHHhHhHh
Q 023428          155 ALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAA  194 (282)
Q Consensus       155 a~qL~~Lk~~Lq~AIe~EeyE~AA~lRD~Ik~Le~e~~aa  194 (282)
                      ...|.+|+.++++|.++.+||+||.+||+|+.|++.+.++
T Consensus        16 ~k~i~~Le~~M~~aa~~l~FE~AA~~RD~I~~l~~~l~~~   55 (56)
T d1e52a_          16 QQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRELFIAA   55 (56)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHhc
Confidence            4568899999999999999999999999999999987643