Citrus Sinensis ID: 019893

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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-------290-------300-------310-------320-------330----
Protein Sequence
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEELQ
Secondary Structure (PSIPRED)
ccccEEccccEEcccccccccHHHHHHHHHHHHHHHcccccccEEEEEccccEEcccHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEEEEccccEEEEccccccccccHHHHHHHHHHcccccccccEEEEEEcccccccEEEEEcccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEEEcccccccccHHHHHHHccHEEEcccccccccEEHHEEccccEEEcHHcccccccEEEEHHEccccccccccccccccccHcHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEcEEEEEEEcccEEEEEcccccccccHHHHHHcccccccccccccEEEEEEEccccccccEEEEEHHHccccccccccccccccHHHHHcccccccccccHHHHHHHcccccccccccccccccc
Coil and Loop (DISEMBL)
MVQVLSLStlttsgnggfygspalWRRHFKLLEksrigidrpcfchqfVQGLHLRVTFNLLRQRNLRANAgwlfkggsdrgldassersesanEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAkrglsskseAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVicgmdpvccessswMEIAQVEKlqqgpsqpfyQVLVDVHADPNILVAYVAEEnllasdqpdmarfdhpyisflfygtdtagdfipikqlrekynrpryevptdpedeelq
Flexible Loop (DISEMBL)
MVQVLSLStlttsgnggfygspaLWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQleakrglsskseaqDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFipikqlrekynrpryevptdpedeelq
Low Complexity Region (SEG)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKleaeslaasatalafenaRFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEELQ
Disordered region (IsUnstruct)
*********LTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKG******************DILFFFFQLDLATRVQCALNMEEYDIAQQLR******************************LSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLRE*******************
Disordered Region (DISOPRED)
****************GFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRV***********ANAGWLF*******************EDILFFFFQLDLATRVQCALNMEEYDIAQQLRNK****************************LSIIRLRADLQ****************************************AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQV****QGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRY************
Disordered Region (DISEMBL)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGS************SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEE*******************DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYE***********
Disordered Region (DISPRO)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGG*************SANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAK****SKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYEVPT*P******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVQVLSLSTLTTSGNGGFYGSPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQRNLRANAGWLFKGGSDRGLDASSERSESANEDILFFFFQLDLATRVQCALxxxxxxxxxxxxxxxxxxxxxxxxxxxxKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENARFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEELQ
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	334	2.2.26 [Sep-21-2011]
Q8VDH1	627	F-box only protein 21 OS=	yes	no	0.308	0.164	0.315	3e-08
Q5R5S1	621	F-box only protein 21 OS=	yes	no	0.308	0.165	0.315	4e-08
O94952	628	F-box only protein 21 OS=	yes	no	0.308	0.164	0.315	4e-08
Q6D6C5	102	Heat shock protein HspQ O	yes	no	0.245	0.803	0.315	0.0007

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

 Score = 59.7 bits (143), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 51/111 (45%), Gaps = 8/111 (7%)

Query: 207 AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADP 266
            + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+  +  
Sbjct: 502 CYSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVEDGS-- 559

Query: 267 NILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct: 560 ---CRYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

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

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

 Score = 59.3 bits (142), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 51/111 (45%), Gaps = 8/111 (7%)

Query: 207 AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADP 266
            + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+  +  
Sbjct: 495 CYSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVEDGS-- 552

Query: 267 NILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct: 553 ---CRYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 597

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

Pongo abelii (taxid: 9601)

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

 Score = 59.3 bits (142), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 51/111 (45%), Gaps = 8/111 (7%)

Query: 207 AFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADP 266
            + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+  +  
Sbjct: 502 CYSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVEDGS-- 559

Query: 267 NILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct: 560 ---CRYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

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

Homo sapiens (taxid: 9606)

>sp|Q6D6C5|HSPQ_ERWCT Heat shock protein HspQ OS=Erwinia carotovora subsp. atroseptica (strain SCRI 1043 / ATCC BAA-672) GN=hspQ PE=3 SV=1

 Score = 45.1 bits (105), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 29/92 (31%), Positives = 53/92 (57%), Gaps = 10/92 (10%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDP-VCCESSSWMEIAQVEKLQQGPSQPFYQVLV-DVHAD 265
           F LGQ++ HK+ G+  VI  +DP    E+ +W EI+  +  +   S+P+Y V++ D    
Sbjct: 6   FGLGQQIRHKLLGFPGVIIDIDPEYSLETPTWEEISGNDTPR---SEPWYHVVMEDNEGQ 62

Query: 266 PNILVAYVAEENLLASDQPDMARFDHPYISFL 297
           P  +  Y+AE +L+   + +++  DHP ++ L
Sbjct: 63  P--MHTYLAEAHLM---KEELSEHDHPSLNEL 89

Involved in the degradation of certain denaturated proteins, including DnaA, during heat shock stress.

Erwinia carotovora subsp. atroseptica (strain SCRI 1043 / ATCC BAA-672) (taxid: 218491)

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	334
255542114	336	DNA binding protein, putative [Ricinus c	0.982	0.976	0.743	1e-138
147818712	1072	hypothetical protein VITISV_009461 [Viti	0.991	0.308	0.728	1e-137
225423547	340	PREDICTED: uncharacterized protein LOC10	0.991	0.973	0.728	1e-137
356499859	327	PREDICTED: uncharacterized protein LOC10	0.973	0.993	0.697	1e-123
449452875	336	PREDICTED: uncharacterized protein LOC10	0.991	0.985	0.654	1e-122
42568906	330	uvrB/uvrC motif-containing protein [Arab	0.985	0.996	0.666	1e-120
297817996	331	hypothetical protein ARALYDRAFT_904615 [	0.985	0.993	0.658	1e-118
356494893	303	PREDICTED: uncharacterized protein LOC10	0.814	0.897	0.759	1e-113
413952331	334	hypothetical protein ZEAMMB73_938746 [Ze	0.886	0.886	0.646	1e-107
125527819	275	hypothetical protein OsI_03852 [Oryza sa	0.769	0.934	0.719	1e-105

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

 Score =  496 bits (1276), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 249/335 (74%), Positives = 276/335 (82%), Gaps = 7/335 (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 WMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFL 297
           WME AQVEKL +G +QPFYQVLVDVHADPN+LVAYVAEENL+A +QPD+ RFDHPY+SFL
Sbjct: 237 WMETAQVEKLSRGSNQPFYQVLVDVHADPNLLVAYVAEENLVAPEQPDLGRFDHPYVSFL 296

Query: 298 FYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
           FYGTDTAGDFIPIKQLREKYNRPR+EVP DP DE+
Sbjct: 297 FYGTDTAGDFIPIKQLREKYNRPRHEVPFDPPDED 331

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  494 bits (1273), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 244/335 (72%), Positives = 275/335 (82%), Gaps = 4/335 (1%)

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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASD--QPDMARFDHPYISF 296
            E A V+KL +G +QPFYQVLVDVH DPN+LVAYV EENLL  D  +P+  RFDHPY+SF
Sbjct: 241 RESAHVDKLTRGSNQPFYQVLVDVHVDPNLLVAYVPEENLLVPDGPRPNKGRFDHPYLSF 300

Query: 297 LFYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDE 331
           LFYG D AGDFIPIKQLREKYNRPR+EVP DP  E
Sbjct: 301 LFYGMDAAGDFIPIKQLREKYNRPRHEVPGDPPGE 335

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 =  493 bits (1268), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 244/335 (72%), Positives = 275/335 (82%), Gaps = 4/335 (1%)

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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASD--QPDMARFDHPYISF 296
            E A V+KL +G +QPFYQVLVDVH DPN+LVAYV EENLL  D  +P+  RFDHPY+SF
Sbjct: 241 RESAHVDKLTRGSNQPFYQVLVDVHVDPNLLVAYVPEENLLVPDGPRPNKGRFDHPYLSF 300

Query: 297 LFYGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDE 331
           LFYG D AGDFIPIKQLREKYNRPR+EVP DP  E
Sbjct: 301 LFYGMDAAGDFIPIKQLREKYNRPRHEVPGDPPGE 335

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  446 bits (1146), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 233/334 (69%), Positives = 271/334 (81%), Gaps = 9/334 (2%)

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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
           ME AQV+KL +G +QPFYQVLVDVHA+PN+LVAYV EENLL  D+PD  RFDHPYISFLF
Sbjct: 234 MENAQVKKLSRGSAQPFYQVLVDVHAEPNLLVAYVPEENLLTPDKPDTGRFDHPYISFLF 293

Query: 299 YGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
           YG D+AGDFIPIKQLREKYN+PR+E+P DP ++E
Sbjct: 294 YGMDSAGDFIPIKQLREKYNKPRHEIPIDPPNDE 327

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  443 bits (1140), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 220/336 (65%), Positives = 261/336 (77%), Gaps = 5/336 (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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
           MEIAQVEKL +G +QPFYQVLVDV  DP++LVAYVAEENLLA ++PD  RFDHPY SFLF
Sbjct: 240 MEIAQVEKLSRGSNQPFYQVLVDVRTDPDLLVAYVAEENLLAPEEPDTERFDHPYSSFLF 299

Query: 299 YGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEELQ 334
           YG D+AGDFIPIKQLREKYNRPRYEVP   ED+E Q
Sbjct: 300 YGVDSAGDFIPIKQLREKYNRPRYEVPF--EDDEQQ 333

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  438 bits (1126), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 222/333 (66%), Positives = 257/333 (77%), Gaps = 4/333 (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 EIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFY 299
           E A+VEKL +G +QPFYQVLVDV   P++LVAYVAE+NLLA ++PD  RFDHPYISFL+Y
Sbjct: 238 EAAEVEKLPRGSNQPFYQVLVDVRTHPDLLVAYVAEDNLLAPEKPDKERFDHPYISFLYY 297

Query: 300 GTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
           G DTAGDFIP+KQLREKYNRPR+EVP D +DE+
Sbjct: 298 GADTAGDFIPVKQLREKYNRPRHEVPFDSQDED 330

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 =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 220/334 (65%), Positives = 257/334 (76%), Gaps = 5/334 (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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
           ME A+VEKL +G +QPFYQVLVD    P+++VAYVAE+NLLA ++PD  RFDHPYISFL+
Sbjct: 238 MEAAEVEKLPRGSNQPFYQVLVDARTHPDLVVAYVAEDNLLAPEKPDKERFDHPYISFLY 297

Query: 299 YGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
           YG DTAGDFIP+KQLREKYNRPR+EVP D ++E+
Sbjct: 298 YGADTAGDFIPVKQLREKYNRPRHEVPFDSQEED 331

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 208/274 (75%), Positives = 240/274 (87%), Gaps = 2/274 (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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
           ME AQV+KL +G +QPFYQVLVDVHA+PN+LVAYV EENLL  D+PD  RFDHPYISFLF
Sbjct: 210 MENAQVKKLSRGSAQPFYQVLVDVHAEPNLLVAYVPEENLLTPDKPDKGRFDHPYISFLF 269

Query: 299 YGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
           YG D+AGDFIPIKQLREKYN+PR+E+P DP ++E
Sbjct: 270 YGMDSAGDFIPIKQLREKYNKPRHEIPIDPPNDE 303

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413952331|gb|AFW84980.1| hypothetical protein ZEAMMB73_938746 [Zea mays] gi|413952332|gb|AFW84981.1| hypothetical protein ZEAMMB73_938746 [Zea mays] gi|413952333|gb|AFW84982.1| hypothetical protein ZEAMMB73_938746 [Zea mays]

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 199/308 (64%), Positives = 235/308 (76%), Gaps = 12/308 (3%)

Query: 35  SRIGIDRPCFCHQFVQGLHLRVTF--------NLLRQRN--LRANAGWLFKGGSDRGLDA 84
           +R  +  PC  +   QGLH    +        N  R+ N  ++ NA WLF GG  R  DA
Sbjct: 24  ARNDVRLPCEVNAVSQGLHSLHWWCAHKPQMKNNGRRMNAAVKTNARWLF-GGDGRSNDA 82

Query: 85  SSERSESANEDILFFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRG 144
             ERSESANEDIL F+FQ+DL TR+Q ALN+E++D+A+QLR KLTE+E EI RQ EA+RG
Sbjct: 83  RLERSESANEDILIFYFQMDLQTRIQYALNIEQFDVAKQLREKLTEIETEIIRQREARRG 142

Query: 145 LSSKSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLAASATALAFENA 204
            S K+EAQDKAL++IR+RADLQKAIDSENYALAA LRD I KLE ESLA SA ALA++N 
Sbjct: 143 -SPKTEAQDKALNLIRVRADLQKAIDSENYALAAGLRDDIAKLEVESLAVSAKALAYQNV 201

Query: 205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHA 264
           ++AFRLGQKV H I GYR VICGMDPVCCES SWME A VEKL +GP+QPFYQVLVDV+ 
Sbjct: 202 KYAFRLGQKVRHNIHGYRGVICGMDPVCCESKSWMETANVEKLSKGPNQPFYQVLVDVYV 261

Query: 265 DPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKYNRPRYEV 324
           DP +LVAYVAEENL A+++ +  RFDHPYI FLFYG DTAGDFIPIKQLREKY++PRYE 
Sbjct: 262 DPELLVAYVAEENLSAAEESEKGRFDHPYIEFLFYGEDTAGDFIPIKQLREKYDQPRYEA 321

Query: 325 PTDPEDEE 332
             D  D +
Sbjct: 322 SGDESDND 329

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

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 =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 187/260 (71%), Positives = 219/260 (84%), Gaps = 3/260 (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 VEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDT 303
           VE L +GP+QPFYQVLVDV+ADP +LVAYVAEENL  ++  +  RFDHPYI FLF+G DT
Sbjct: 182 VENLSKGPNQPFYQVLVDVYADPELLVAYVAEENLAEAEISEKGRFDHPYIEFLFFGEDT 241

Query: 304 AGDFIPIKQLREKYNRPRYE 323
           AGDFIPIKQLREKY++PRYE
Sbjct: 242 AGDFIPIKQLREKYDQPRYE 261

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	334
TAIR|locus:2063761	330	AT2G03390 [Arabidopsis thalian	0.982	0.993	0.634	1.6e-102
UNIPROTKB|Q0C189	150	HNE_1800 "Hemimethylated DNA b	0.272	0.606	0.346	8.7e-09
UNIPROTKB|F1NDZ7	612	FBXO21 "Uncharacterized protei	0.305	0.166	0.336	2.5e-08
UNIPROTKB|H0YIE9	505	FBXO21 "F-box only protein 21"	0.305	0.201	0.327	8.4e-08
RGD|1307346	572	Fbxo21 "F-box protein 21" [Rat	0.305	0.178	0.327	9.3e-08
MGI|MGI:1924223	627	Fbxo21 "F-box protein 21" [Mus	0.305	0.162	0.327	1.2e-07
UNIPROTKB|E9PTD1	627	Fbxo21 "Protein Fbxo21" [Rattu	0.305	0.162	0.327	1.2e-07
UNIPROTKB|E2RKH1	620	FBXO21 "Uncharacterized protei	0.305	0.164	0.327	1.5e-07
UNIPROTKB|F1RKE9	627	FBXO21 "Uncharacterized protei	0.305	0.162	0.327	1.6e-07
UNIPROTKB|O94952	628	FBXO21 "F-box only protein 21"	0.305	0.162	0.327	1.6e-07

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

 Score = 1016 (362.7 bits), Expect = 1.6e-102, P = 1.6e-102
 Identities = 212/334 (63%), Positives = 245/334 (73%)

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 MEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
             ME A+VEKL +G +QPFYQVLVDV   P++LVAYVAE+NLLA ++PD  RFDHPYISFL+
Sbjct:   237 MEAAEVEKLPRGSNQPFYQVLVDVRTHPDLLVAYVAEDNLLAPEKPDKERFDHPYISFLY 296

Query:   299 YGTDTAGDFIPIKQLREKYNRPRYEVPTDPEDEE 332
             YG DTAGDFIP+KQLREKYNRPR+EVP D +DE+
Sbjct:   297 YGADTAGDFIPVKQLREKYNRPRHEVPFDSQDED 330

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|Q0C189 HNE_1800 "Hemimethylated DNA binding domain protein" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]

 Score = 137 (53.3 bits), Expect = 8.7e-09, P = 8.7e-09
 Identities = 34/98 (34%), Positives = 52/98 (53%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             F++GQ V HK+F +R VI  +DP    +  W +    E+++    QPFY +  +   D  
Sbjct:    49 FQIGQVVRHKLFPFRGVIFDVDPQFANTDEWYDSIP-EEVRPRKDQPFYHLFAE--NDRT 105

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYIS--FLFYGTDT 303
               +AYV+E+NL+  D  D+    HP IS  F   G+ T
Sbjct:   106 HYIAYVSEQNLIPDDS-DVP-LSHPDISDWFTMNGSGT 141

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 150 (57.9 bits), Expect = 2.5e-08, Sum P(2) = 2.5e-08
 Identities = 37/110 (33%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             F +G  + HK +GY  VI G DP C     W+    V  L  GP QPFY VLV+   D +
Sbjct:   477 FSIGLIMKHKRYGYNCVIYGWDPACMMGHEWIRNMNVHSLPHGPHQPFYNVLVE---DGS 533

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP I   ++   T   ++   +L  +Y
Sbjct:   534 C--RYAAQENLEHNSEP--REIPHPDIG-RYFSEFTGTHYLANTELEIRY 578

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 8.4e-08, Sum P(2) = 8.4e-08
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   380 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 436

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   437 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 481

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 147 (56.8 bits), Expect = 9.3e-08, Sum P(2) = 9.3e-08
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   448 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 504

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   505 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 549

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 147 (56.8 bits), Expect = 1.2e-07, Sum P(2) = 1.2e-07
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   503 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 559

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   560 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

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 = 147 (56.8 bits), Expect = 1.2e-07, Sum P(2) = 1.2e-07
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   503 YSIGLVMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 559

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   560 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 1.5e-07, Sum P(2) = 1.5e-07
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   496 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 552

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   553 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 597

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 1.6e-07, Sum P(2) = 1.6e-07
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   503 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 559

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   560 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 1.6e-07, Sum P(2) = 1.6e-07
 Identities = 36/110 (32%), Positives = 52/110 (47%)

Query:   208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPN 267
             + +G  + HK +GY  VI G DP C     W+    V  L  G  QPFY VLV+   D +
Sbjct:   503 YSIGLIMKHKRYGYNCVIYGWDPTCMMGHEWIRNMNVHSLPHGHHQPFYNVLVE---DGS 559

Query:   268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLREKY 317
                 Y A+ENL  + +P      HP +   ++   T   +IP  +L  +Y
Sbjct:   560 C--RYAAQENLEYNVEPQ--EISHPDVG-RYFSEFTGTHYIPNAELEIRY 604

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	334
TIGR02097	101	TIGR02097, yccV, hemimethylated DNA binding domain	8e-32
pfam08755	100	pfam08755, YccV-like, Hemimethylated DNA-binding p	1e-31
smart00992	98	smart00992, YccV-like, Hemimethylated DNA-binding	4e-16
COG3785	116	COG3785, COG3785, Uncharacterized conserved protei	2e-10
PRK14129	105	PRK14129, PRK14129, heat shock protein HspQ; Provi	4e-05
pfam02151	36	pfam02151, UVR, UvrB/uvrC motif	1e-04
COG0556	663	COG0556, UvrB, Helicase subunit of the DNA excisio	2e-04

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

 Score =  114 bits (287), Expect = 8e-32
 Identities = 39/103 (37%), Positives = 51/103 (49%), Gaps = 4/103 (3%)

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

Query: 267 NILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIP 309
              VAYVAE+NLL  D  +    +HP +  LF G D       
Sbjct: 62  PY-VAYVAEQNLLYDDSDE--PIEHPQVDELFDGFDEGLQKPR 101

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|220004 pfam08755, YccV-like, Hemimethylated DNA-binding protein YccV like

 Score =  113 bits (286), Expect = 1e-31
 Identities = 39/102 (38%), Positives = 48/102 (47%), Gaps = 5/102 (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 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIP 309
             VAYVAEENL            HP +  LF   D       
Sbjct: 61  SYVAYVAEENLEPDASG--EPIRHPDLGELFDRFDGGRYIPR 100

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|214961 smart00992, YccV-like, Hemimethylated DNA-binding protein YccV like

 Score = 72.7 bits (179), Expect = 4e-16
 Identities = 36/93 (38%), Positives = 46/93 (49%), Gaps = 9/93 (9%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGP--SQPFYQVLVDVHAD 265
           FR+GQ V HK+FGYR V+   DP    +  W +    +     P   QPFY VL  V  D
Sbjct: 4   FRIGQVVRHKLFGYRGVVFDWDPEFANTEEWYDEIPED---SRPPRDQPFYHVL--VEND 58

Query: 266 PNILVAYVAEENLLASDQPDMARFDHPYISFLF 298
            +  VAYV+E+NL           DHP +  LF
Sbjct: 59  DSSYVAYVSEQNLEPDTSG--EPIDHPLLDELF 89

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 = 57.1 bits (138), Expect = 2e-10
 Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 5/91 (5%)

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 ILVAYVAEENLLASDQPDMARFDHPYISFLF 298
             VAYV+E+NL++    +  R  HP I  LF
Sbjct: 72  EYVAYVSEQNLVSDLSDEPPR--HPQIDELF 100

Length = 116

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

 Score = 41.6 bits (98), Expect = 4e-05
 Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 12/87 (13%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPV-CCESSSWMEIAQVEKLQQGPSQPFYQVLV-DVHAD 265
           F +GQ+V H + GY  V+  +DP    E  S  E+A  ++L+   + P+Y V++ D    
Sbjct: 6   FGIGQQVRHSLLGYLGVVVDIDPEYSLEEPSPDELAVNDELR---AAPWYHVVMEDDDGQ 62

Query: 266 PNILVAYVAEENLLASDQPDMARFDHP 292
           P  +  Y+AE  L +  Q      +HP
Sbjct: 63  P--VHTYLAEAQLSSELQD-----EHP 82

Length = 105

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

 Score = 38.5 bits (91), Expect = 1e-04
 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 = 43.0 bits (102), Expect = 2e-04
 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	334
PF08755	100	YccV-like: Hemimethylated DNA-binding protein YccV	100.0
TIGR02097	101	yccV hemimethylated DNA binding domain. This model	100.0
PRK14129	105	heat shock protein HspQ; Provisional	99.9
COG3785	116	Uncharacterized conserved protein [Function unknow	99.83
COG3880	176	Modulator of heat shock repressor CtsR, McsA [Sign	99.31
PF02151	36	UVR: UvrB/uvrC motif; InterPro: IPR001943 During t	98.0
KOG4408	386	consensus Putative Mg2+ and Co2+ transporter CorD	97.88
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	95.18
PRK00558	598	uvrC excinuclease ABC subunit C; Validated	94.34
PRK05298	652	excinuclease ABC subunit B; Provisional	93.41
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	92.97
PRK12306	519	uvrC excinuclease ABC subunit C; Reviewed	92.71
PRK14667	567	uvrC excinuclease ABC subunit C; Provisional	92.54
PRK14666	694	uvrC excinuclease ABC subunit C; Provisional	92.5
PRK07883	557	hypothetical protein; Validated	92.23
TIGR00194	574	uvrC excinuclease ABC, C subunit. This family cons	91.97
PRK14672	691	uvrC excinuclease ABC subunit C; Provisional	91.81
PRK14669	624	uvrC excinuclease ABC subunit C; Provisional	91.81
PRK14668	577	uvrC excinuclease ABC subunit C; Provisional	90.05
PRK14671	621	uvrC excinuclease ABC subunit C; Provisional	89.89
PRK14670	574	uvrC excinuclease ABC subunit C; Provisional	89.51
COG0322	581	UvrC Nuclease subunit of the excinuclease complex	88.07

>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=100.00  E-value=4.9e-35  Score=240.51  Aligned_cols=100  Identities=42%  Similarity=0.744  Sum_probs=51.8

Q ss_pred             ccccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCC
Q 019893          205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQP  284 (334)
Q Consensus       205 ~VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p  284 (334)
                      .++|+|||||+||+|||+|||+|||+.|+++++|+.+++++.++. ++||||+||+++++.  +..+||||+||++...+
T Consensus         1 ~~~f~vGqvv~Hr~~~y~GVIvgwD~~~~~~~~W~~~~~~~~~~~-~~qPfY~vLv~~~~~--~~~~YVaEenL~~~~~~   77 (100)
T PF08755_consen    1 NVKFRVGQVVRHRRYGYRGVIVGWDPECQAPEEWIEQMGVDNLPR-RNQPFYHVLVDDRDS--PPVRYVAEENLEPDSTP   77 (100)
T ss_dssp             --SS-TT-EEEETTT--EEEEEEEE-------------------------EEEEEEE-SS----EEEEEEGGGEEE---S
T ss_pred             CcccccCCEEEEeeeCccEEEECcccccCCCchHHHhcccccccc-CCCCcEEEEEecCCc--cceEEecccccccCCCC
Confidence            379999999999999999999999999999999999999887766 999999999998754  45599999999887654


Q ss_pred             CCCccCchhhhhhccccCCCCceeeC
Q 019893          285 DMARFDHPYISFLFYGTDTAGDFIPI  310 (334)
Q Consensus       285 ~~~pI~HP~ig~yF~rFD~~grYvPn  310 (334)
                        .++.||.|++||++||++ +|+||
T Consensus        78 --~~i~hp~i~~yF~~fd~~-~y~p~  100 (100)
T PF08755_consen   78 --EPINHPEIGRYFKRFDGG-RYVPN  100 (100)
T ss_dssp             ----TT-HHHHHHHHHHTT-------
T ss_pred             --CCcCChHHHHHHHhhCCC-cCccC
Confidence              789999999999999876 89997

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

>TIGR02097 yccV hemimethylated DNA binding domain

Probab=100.00  E-value=7.2e-34  Score=235.07  Aligned_cols=100  Identities=40%  Similarity=0.656  Sum_probs=90.2

Q ss_pred             cccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCCC
Q 019893          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPD  285 (334)
Q Consensus       206 VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p~  285 (334)
                      ++|+||||||||+|||+|||+||||.|+++++|+.+|+++..+. ++|||||||+++++.. +.++||||+||++..++ 
T Consensus         2 ~kf~IGqvvrHr~~~yrGVI~gwDp~~~~~eeW~~~~~~~~~p~-~~qPfYhvLv~~~~~~-~~~aYVaE~nL~~~~~~-   78 (101)
T TIGR02097         2 AKFRIGQVVRHKLFGYRGVVIDVDPEYSNTEEWLDAIPVEIRPL-RDQPFYHVLAEDDEGL-PYVAYVAEQNLLYDDSD-   78 (101)
T ss_pred             ceecCCCEEEecccCCCEEEEeEChhccCChHHHHhhhcccCcc-cCCCceEEEEeCCCCc-ceeEEeehhhcccCCCC-
Confidence            68999999999999999999999999999999999999887665 9999999999986543 38899999999998765 


Q ss_pred             CCccCchhhhhhccccCCCCceeeC
Q 019893          286 MARFDHPYISFLFYGTDTAGDFIPI  310 (334)
Q Consensus       286 ~~pI~HP~ig~yF~rFD~~grYvPn  310 (334)
                       .+|.||.++.||+.|+++ +|+|+
T Consensus        79 -~~i~hP~~~~~F~~~~~~-~y~~~  101 (101)
T TIGR02097        79 -EPIEHPQVDELFDGFDEG-LQKPR  101 (101)
T ss_pred             -CCCCCCCHHHHHhhhccC-cccCC
Confidence             899999999999999765 79875

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.

>PRK14129 heat shock protein HspQ; Provisional

Probab=99.90  E-value=4.3e-24  Score=176.76  Aligned_cols=90  Identities=23%  Similarity=0.372  Sum_probs=78.4

Q ss_pred             cccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCCC
Q 019893          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPD  285 (334)
Q Consensus       206 VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p~  285 (334)
                      -||.|||+||||.|||||||++.||.|+.+++|...+..+  .+.++|||||||+++.+ +.+.++||||.||++.++  
T Consensus         4 akF~IGQ~VrHrl~~yrGVV~DVDP~fs~~e~w~~~ia~~--~p~kdqPwYHvl~en~~-~~~v~tYVaE~nL~~d~s--   78 (105)
T PRK14129          4 SKFGIGQQVRHSLLGYLGVVVDIDPEYSLEEPSPDELAVN--DELRAAPWYHVVMEDDD-GQPVHTYLAEAQLSSELQ--   78 (105)
T ss_pred             ccccCCcEEEEeecCCCeEEEeeCCCcCCCchhHHhhccC--CCccCCCceEEEEEcCC-CceEEEEeeecccCCCCC--
Confidence            4899999999999999999999999999999999998654  45689999999997643 334459999999999875  


Q ss_pred             CCccCchhhhhhccc
Q 019893          286 MARFDHPYISFLFYG  300 (334)
Q Consensus       286 ~~pI~HP~ig~yF~r  300 (334)
                      ..++.||.++.+|..
T Consensus        79 ~epi~hP~l~elf~~   93 (105)
T PRK14129         79 DEHPEQPSMDELAES   93 (105)
T ss_pred             CCCCCCCCHHHHHHH
Confidence            489999999999974

>COG3785 Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=1.9e-21  Score=161.52  Aligned_cols=101  Identities=31%  Similarity=0.509  Sum_probs=88.2

Q ss_pred             ccccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCC
Q 019893          205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQP  284 (334)
Q Consensus       205 ~VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p  284 (334)
                      .-||.|||||||+.|+|+|||++.||++...++|...+..+ .++.++|||||||+++++  .+.++||+|.||....+ 
T Consensus        12 ~aKF~IGQvVRHrlfpfrGVV~DvDPeyanteew~~~ip~~-~rp~rdqPfYHllaEnde--~~yvaYvsEqnL~~d~s-   87 (116)
T COG3785          12 AAKFGIGQVVRHRLFPFRGVVFDVDPEYANTEEWPDEIPVN-IRPLRDQPFYHLLAENDE--TEYVAYVSEQNLVSDLS-   87 (116)
T ss_pred             HhhcchhhhhhhhhcccceEEEecCcccccCccChhhcccc-ccccccCCceeeeeecCC--ccceeeehhhhcccccc-
Confidence            35899999999999999999999999999999999998654 357789999999998854  57899999999998865 


Q ss_pred             CCCccCchhhhhhccccCCCCceeeCh
Q 019893          285 DMARFDHPYISFLFYGTDTAGDFIPIK  311 (334)
Q Consensus       285 ~~~pI~HP~ig~yF~rFD~~grYvPn~  311 (334)
                       ..|+.||.++..|.+++. |.|.|..
T Consensus        88 -dep~~~Pqidelf~~~~~-g~~~pk~  112 (116)
T COG3785          88 -DEPPRHPQIDELFDKIRK-GLQAPKL  112 (116)
T ss_pred             -CCCCCCCCHHHHHHhhhc-ccccccc
Confidence             478999999999999865 4788763

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

Probab=99.31  E-value=1.7e-12  Score=116.25  Aligned_cols=90  Identities=24%  Similarity=0.285  Sum_probs=80.5

Q ss_pred             hhHhHhhhhhhhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHHhhchhchhHH
Q 019893           98 FFFFQLDLATRVQCALNMEEYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQKAIDSENYALA  177 (334)
Q Consensus        98 ~f~~~~~~~~rlq~~~~~~~y~~a~~l~~~l~~i~~e~~~~~~~K~~~~~~~~a~d~a~qL~~Lk~~Lq~aI~~E~yE~A  177 (334)
                      +=|=+.-..+|+|||-+|..|..  +|.|-+.+|++. ...|.||.| .+.......+.+|..|+..||++|+.|+||+|
T Consensus        82 ~Tfk~f~~~g~fGCaeCY~tf~~--~i~pi~~rvq~g-~~~H~GK~P-~~~~~~i~~~~~I~~L~e~Lq~~i~~EefEeA  157 (176)
T COG3880          82 MTFKEFIQSGLFGCAECYKTFES--QISPIITRVQGG-YVEHVGKVP-KRIGRKINPKRKIIALKEALQDLIEREEFEEA  157 (176)
T ss_pred             ccHHHHHHhcccchHHHHHHHHH--HhhHHHHHhhCC-ceeecCcCc-ccccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556677899999999999999  999999999855 378999999 66777889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 019893          178 ADLRDQICKLEAES  191 (334)
Q Consensus       178 A~LRD~Ik~LE~~~  191 (334)
                      |.+||+|+.|+++.
T Consensus       158 A~iRDqIr~Lk~k~  171 (176)
T COG3880         158 AVIRDQIRALKAKN  171 (176)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999998764

>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=98.00  E-value=1e-05  Score=55.41  Aligned_cols=34  Identities=35%  Similarity=0.556  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHH
Q 019893          157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (334)
Q Consensus       157 qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~  190 (334)
                      .|..|+.+|..|++.++||+||.|||+|..|+++
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            5778999999999999999999999999999764

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=97.88  E-value=1.5e-05  Score=78.84  Aligned_cols=114  Identities=20%  Similarity=0.312  Sum_probs=82.2

Q ss_pred             ccccccccccEEEEecCCeeEEEE-cccccccCChhhHHHh--------------------hhh-------------hcC
Q 019893          203 NARFAFRLGQKVNHKIFGYRAVIC-GMDPVCCESSSWMEIA--------------------QVE-------------KLQ  248 (334)
Q Consensus       203 ~~~VkFrVGQVVrHrrygYrGVIv-GWD~~c~a~eeW~~~~--------------------~v~-------------~l~  248 (334)
                      ...-+|.-||.|+|+.|||+|||+ .|+..-.   +|....                    ...             +.-
T Consensus        62 ~~~~~~etgqsF~h~~f~yvgvv~~~w~arlk---~wd~ln~~~~~aal~ega~e~dl~a~e~s~~~kLp~~~r~~yrev  138 (386)
T KOG4408|consen   62 EKTQKYETGQSFLHDTFGYVGVVLFPWAARLK---DWDDLNKYLEPAALKEGAREPDLDAVEASIGCKLPDDYRCSYREV  138 (386)
T ss_pred             ccCCcccccceeeeeecccceEEEEechHhhh---hhhhcccccccchhhccCcccchhhhhhcccccCCCccccchhhc
Confidence            445689999999999999999997 7876221   111111                    000             123


Q ss_pred             CCCCCCeEEEEeecCCCCC--------------------------ceeeeecccCccccCCCCCCccCchhhhhhccc-c
Q 019893          249 QGPSQPFYQVLVDVHADPN--------------------------ILVAYVAEENLLASDQPDMARFDHPYISFLFYG-T  301 (334)
Q Consensus       249 ~g~~QPFY~VLvd~~d~~~--------------------------~~~~YVAEENLe~~~~p~~~pI~HP~ig~yF~r-F  301 (334)
                      .|..+.||+||.+.+|+++                          +...||..+.|.+++..+..++.|..+..+|.- .
T Consensus       139 ~Gq~l~~yqvLi~~~d~sH~~~ev~~e~~t~~~nf~~r~~L~y~ipgld~v~hedilpyts~e~~~g~heLf~~~pdl~r  218 (386)
T KOG4408|consen  139 KGQTLTFYQVLIDMRDCSHIRSEVQTEAVTFLGNFDSRQGLKYAIPGLDYVSHEDILPYTSSEAVPGQHELFDQFPDLAR  218 (386)
T ss_pred             CCeEEeehheeeecccCccccchhhhhhhhhhcCcccccchheecccceeEeeccccccccccccccchhhhhhhhhhhc
Confidence            6788999999999887653                          457799999999999888899999777777541 1


Q ss_pred             CC--CCceeeChhhHHhcCC
Q 019893          302 DT--AGDFIPIKQLREKYNR  319 (334)
Q Consensus       302 D~--~grYvPn~~Lre~YPd  319 (334)
                      |.  ...|+-.+.|++.|-.
T Consensus       219 ~~~~~~~f~~q~tl~~W~e~  238 (386)
T KOG4408|consen  219 DPAAIPPFVIQDTLTAWQES  238 (386)
T ss_pred             CcccCCchhhhHHHHHHHhc
Confidence            32  2268888889988874

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

Probab=95.18  E-value=0.046  Score=57.77  Aligned_cols=45  Identities=29%  Similarity=0.389  Sum_probs=39.6

Q ss_pred             chhHHHHHHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          148 KSEAQDKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       148 ~~~a~d~a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +....+.+..|.+|+.+|++|-++-+||+||.|||+|++|+++..
T Consensus       616 ~~~~~e~~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~~~  660 (663)
T COG0556         616 KMSKKELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEELL  660 (663)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhc
Confidence            345667888899999999999999999999999999999987654

>PRK00558 uvrC excinuclease ABC subunit C; Validated

Probab=94.34  E-value=0.055  Score=57.48  Aligned_cols=36  Identities=25%  Similarity=0.307  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          157 SIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       157 qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      -+.+|+.+|++|.++.+||+||.+||+|+.|++-.+
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            466799999999999999999999999999986654

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=93.41  E-value=0.11  Score=55.55  Aligned_cols=40  Identities=30%  Similarity=0.378  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       153 d~a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      .....+..|+.+|++|.+.++||+||.+||+|+.|++...
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            4445677899999999999999999999999999987654

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=92.97  E-value=0.1  Score=55.97  Aligned_cols=36  Identities=28%  Similarity=0.399  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHH
Q 019893          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLE  188 (334)
Q Consensus       153 d~a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE  188 (334)
                      +....|..|+.+|++|.++.+||+||++||+|+.|+
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=92.71  E-value=0.15  Score=53.58  Aligned_cols=35  Identities=20%  Similarity=0.336  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +.+|+.+|++|-++.+||+||++||.|+.|+.-.+
T Consensus       194 ~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~~~~  228 (519)
T PRK12306        194 IEKLEEEMAEKAKNQQFERALVIRDEINAIENLQE  228 (519)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHh
Confidence            55688999999999999999999999999975443

>PRK14667 uvrC excinuclease ABC subunit C; Provisional

Probab=92.54  E-value=0.14  Score=54.22  Aligned_cols=35  Identities=26%  Similarity=0.223  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+++|+.|-++.+||+||++||.|+.|+.-.+
T Consensus       201 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~~  235 (567)
T PRK14667        201 LPELYDKIEEYSQKLMFEKAAVIRDQILALENLIK  235 (567)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHh
Confidence            55789999999999999999999999999976544

>PRK14666 uvrC excinuclease ABC subunit C; Provisional

Probab=92.50  E-value=0.16  Score=55.13  Aligned_cols=35  Identities=31%  Similarity=0.387  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|++|.++.+||+||++||.|+.|+.-.+
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            55689999999999999999999999999976554

>PRK07883 hypothetical protein; Validated

Probab=92.23  E-value=0.15  Score=53.74  Aligned_cols=35  Identities=29%  Similarity=0.413  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +.+|+.+|++|-++.+||+||++||+|+.|+.-.+
T Consensus       408 ~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~~  442 (557)
T PRK07883        408 LAALRARIDRLAAAERFEEAARLRDRLAALLRALA  442 (557)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence            55789999999999999999999999999975443

>TIGR00194 uvrC excinuclease ABC, C subunit

Probab=91.97  E-value=0.22  Score=52.86  Aligned_cols=35  Identities=29%  Similarity=0.385  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +.+|+.+|++|-++.+||+||.+||.|+.|+.-.+
T Consensus       196 ~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~~  230 (574)
T TIGR00194       196 IKELEQKMEKASENLEFEEAARIRDQIAAVRELNE  230 (574)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHh
Confidence            55688999999999999999999999999975444

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.

>PRK14672 uvrC excinuclease ABC subunit C; Provisional

Probab=91.81  E-value=0.22  Score=54.04  Aligned_cols=35  Identities=26%  Similarity=0.474  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|++|-++.+||+||++||.|+.|+.-.+
T Consensus       207 l~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~~~~~  241 (691)
T PRK14672        207 VARLEKRMKRAVRQEAFEAAARIRDDIQAIRCITH  241 (691)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHh
Confidence            55689999999999999999999999999986554

>PRK14669 uvrC excinuclease ABC subunit C; Provisional

Probab=91.81  E-value=0.24  Score=53.18  Aligned_cols=35  Identities=31%  Similarity=0.323  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|+.|-++.+||+||++||.|+.|+.-.+
T Consensus       205 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~~  239 (624)
T PRK14669        205 ARSLRARMEAAALEMQFELAAKYRDLITTVEELEE  239 (624)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHh
Confidence            45689999999999999999999999999976544

>PRK14668 uvrC excinuclease ABC subunit C; Provisional

Probab=90.05  E-value=0.33  Score=51.61  Aligned_cols=35  Identities=29%  Similarity=0.374  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|++|-++.+||+||++||.|+.|+.-.+
T Consensus       201 ~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~~~~~  235 (577)
T PRK14668        201 ADPLRREMEAAAQAQEFERAANLRDRLEAVEAFHG  235 (577)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            55789999999999999999999999999976544

>PRK14671 uvrC excinuclease ABC subunit C; Provisional

Probab=89.89  E-value=0.34  Score=51.92  Aligned_cols=35  Identities=31%  Similarity=0.390  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|++|-++.+||+||++||.|+.|+.-.+
T Consensus       217 ~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~~~~~  251 (621)
T PRK14671        217 IRSLTEEMQRAAAELKFEEAAELKDQIESLKRYAE  251 (621)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence            55789999999999999999999999999975443

>PRK14670 uvrC excinuclease ABC subunit C; Provisional

Probab=89.51  E-value=0.38  Score=51.15  Aligned_cols=35  Identities=20%  Similarity=0.330  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAESL  192 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~  192 (334)
                      +..|+.+|+.|-++.+||+||++||.|+.|+.-.+
T Consensus       179 ~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~~~~~  213 (574)
T PRK14670        179 LSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEISQ  213 (574)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHh
Confidence            55689999999999999999999999999976554

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

Probab=88.07  E-value=1.2  Score=47.64  Aligned_cols=34  Identities=32%  Similarity=0.436  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHH
Q 019893          158 IIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (334)
Q Consensus       158 L~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~  191 (334)
                      +..|+++|++|-+..+||.||.+||.|+.|+.-.
T Consensus       204 ~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~l~  237 (581)
T COG0322         204 LQELEEKMEEASENLDFERAARLRDQIKALEKLQ  237 (581)
T ss_pred             HHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHH
Confidence            5578899999999999999999999999996544

---

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	334
1vbv_A	105	Hypothetical protein B0966; protein degradation, s	2e-25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

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

 Score = 96.9 bits (241), Expect = 2e-25
 Identities = 26/107 (24%), Positives = 45/107 (42%), Gaps = 8/107 (7%)

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

Query: 268 ILVAYVAEENLLASDQPDMARFDHPYISFLFYGTDTAGDFIPIKQLR 314
            +  Y+AE  L +  Q +    + P +  L           P  +LR
Sbjct: 63  PVHTYLAEAQLSSELQDE--HPEQPSMDELAQTIR-KQLQAP--RLR 104

>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 = 42.9 bits (100), Expect = 1e-04
 Identities = 54/397 (13%), Positives = 117/397 (29%), Gaps = 117/397 (29%)

Query: 21  SPALWRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRVTFNLLRQ--RNLRANAGWLFKG-- 76
            P++  R + + ++ R+  D   F    V  L     +  LRQ    LR     L  G  
Sbjct: 104 QPSMMTRMY-IEQRDRLYNDNQVFAKYNVSRLQP---YLKLRQALLELRPAKNVLIDGVL 159

Query: 77  GSDRG---LDASSERSESANEDILFFFF----------------QLDLATRVQCALNMEE 117
           GS  G   +      S      + F  F                   L  ++        
Sbjct: 160 GS--GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT-SR 216

Query: 118 YDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALSIIRLRADLQ--KAIDSENYA 175
            D +  ++ ++  ++ E+ R L++K          +  L ++    ++Q  KA +     
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPY--------ENCLLVLL---NVQNAKAWN----- 260

Query: 176 LAADLRDQICKL--------EAESLAASATA-LAFENARFAFR-------LGQKVNHKIF 219
            A +L    CK+          + L+A+ T  ++ ++             L + ++ +  
Sbjct: 261 -AFNLS---CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316

Query: 220 GYRAVICGMDPVCC---------ESSSWMEIAQV--EKL---------QQGPS--QPFYQ 257
                +   +P              ++W     V  +KL            P+  +  + 
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376

Query: 258 VLV----DVHADPNILVAY-----------VAEE----NLLASDQPDMARFDHP-YISFL 297
            L       H    +L              V  +    +L+     +        Y+   
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436

Query: 298 FYGTDTAGDFIPIKQLREKYNRPRY----EVPTDPED 330
                   ++   + + + YN P+     ++     D
Sbjct: 437 ---VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	334
1vbv_A	105	Hypothetical protein B0966; protein degradation, s	99.98
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	97.76
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	95.57
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	94.51

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

Probab=99.98  E-value=3e-33  Score=231.47  Aligned_cols=100  Identities=24%  Similarity=0.338  Sum_probs=69.0

Q ss_pred             ccccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCC
Q 019893          205 RFAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQP  284 (334)
Q Consensus       205 ~VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p  284 (334)
                      .++|+|||||+||+|||+|||+||||.|+++++|+..+..+  ..+++|||||||++++| +.+.++||||+||++.+.+
T Consensus         3 ~~kf~IGqvvrHr~~gyrGVI~d~Dp~~~~~eew~~~~~~~--~~~~~QPfYhVL~e~~~-~~~~~~YVaEenL~~~~s~   79 (105)
T 1vbv_A            3 ASKFGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVN--DELRAAPWYHVVMEDDN-GLPVHTYLAEAQLSSELQD   79 (105)
T ss_dssp             CCSSCTTCEEEETTTCCEEEEEEEECC--------------------CCCEEEEEEECSS-CCEEEEEEEGGGEEECCCS
T ss_pred             cceecCCCEEEecccCCCEEEEeECcccCCCHHHHHhcccc--CccCCCCceEEEEeCCC-CceeeeEEcHHhccccCCC
Confidence            57999999999999999999999999999999999999766  46899999999999764 3344599999999998754


Q ss_pred             CCCccCchhhhhhccccCCCCceeeC
Q 019893          285 DMARFDHPYISFLFYGTDTAGDFIPI  310 (334)
Q Consensus       285 ~~~pI~HP~ig~yF~rFD~~grYvPn  310 (334)
                        .+|.||.++.||++|++ |+|+||
T Consensus        80 --~~i~HP~i~~~F~~f~~-~~y~p~  102 (105)
T 1vbv_A           80 --EHPEQPSMDELAQTIRK-QLQAPR  102 (105)
T ss_dssp             --CCTTCHHHHHHHHHHTT-C-----
T ss_pred             --CCcCCCCHHHHhHhhcC-Cccccc
Confidence              78999999999999986 589997

>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=95.57  E-value=0.0066  Score=62.79  Aligned_cols=38  Identities=24%  Similarity=0.467  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHH
Q 019893          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAE  190 (334)
Q Consensus       153 d~a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~  190 (334)
                      +....|.+|+++|++|.++++||+||+|||+|++|+++
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            45566888999999999999999999999999999753

>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=94.51  E-value=0.0065  Score=62.88  Aligned_cols=39  Identities=33%  Similarity=0.378  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHH
Q 019893          153 DKALSIIRLRADLQKAIDSENYALAADLRDQICKLEAES  191 (334)
Q Consensus       153 d~a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~  191 (334)
                      +....|.+|+.+|++|.++++||+||.|||+|++|++++
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            345567889999999999999999999999999998765

---

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	334
d1vbva1	95	b.34.17.1 (A:3-97) Hypothetical protein YccV {Esch	4e-25
d1e52a_	56	a.2.9.1 (A:) C-terminal UvrC-binding domain of Uvr	0.001

>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 = 94.9 bits (236), Expect = 4e-25
 Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 5/91 (5%)

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

Query: 268 ILVAYVAEENLLASDQPDMARFDHPYISFLF 298
            +  Y+AE  L +  Q +    + P +  L 
Sbjct: 61  PVHTYLAEAQLSSELQDE--HPEQPSMDELA 89

>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 = 34.3 bits (79), Expect = 0.001
 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	334
d1vbva1	95	Hypothetical protein YccV {Escherichia coli [TaxId	99.97
d1e52a_	56	C-terminal UvrC-binding domain of UvrB {Escherichi	97.91

>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=99.97  E-value=9.1e-32  Score=217.29  Aligned_cols=92  Identities=25%  Similarity=0.385  Sum_probs=66.4

Q ss_pred             cccccccEEEEecCCeeEEEEcccccccCChhhHHHhhhhhcCCCCCCCeEEEEeecCCCCCceeeeecccCccccCCCC
Q 019893          206 FAFRLGQKVNHKIFGYRAVICGMDPVCCESSSWMEIAQVEKLQQGPSQPFYQVLVDVHADPNILVAYVAEENLLASDQPD  285 (334)
Q Consensus       206 VkFrVGQVVrHrrygYrGVIvGWD~~c~a~eeW~~~~~v~~l~~g~~QPFY~VLvd~~d~~~~~~~YVAEENLe~~~~p~  285 (334)
                      -||+|||||+||+|||+|||+||||.|+++++|+..++.+.  .+++||||||||++++. .+.++||||+||++...+ 
T Consensus         2 aKF~IGqivrHr~~~yrGVI~~wDp~~~~~~eW~~~~~~~~--~~r~QPfYhvLv~~~~~-~~~~tYVaEeNL~~d~~~-   77 (95)
T d1vbva1           2 SKFGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVND--ELRAAPWYHVVMEDDNG-LPVHTYLAEAQLSSELQD-   77 (95)
T ss_dssp             CSSCTTCEEEETTTCCEEEEEEEECC--------------------CCCEEEEEEECSSC-CEEEEEEEGGGEEECCCS-
T ss_pred             CccccCcEEEEeecCcCEEEEeeEEEecCCHHHHHhccccC--CCCCCCcEEEEEEcCCC-cEEEEEecchhcccCCCC-
Confidence            48999999999999999999999999999999999998775  35799999999998643 457899999999998754 


Q ss_pred             CCccCchhhhhhccccC
Q 019893          286 MARFDHPYISFLFYGTD  302 (334)
Q Consensus       286 ~~pI~HP~ig~yF~rFD  302 (334)
                       .+|.||.|+.+|+.+.
T Consensus        78 -~~i~HP~i~el~e~~~   93 (95)
T d1vbva1          78 -EHPEQPSMDELAQTIR   93 (95)
T ss_dssp             -CCTTCHHHHHHHHHHT
T ss_pred             -CCCCCCCHHHHHHHhh
Confidence             7899999999999764

>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=97.91  E-value=5.4e-06  Score=59.66  Aligned_cols=39  Identities=23%  Similarity=0.283  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHhhchhchhHHHHHHHHHHHHHHHHHH
Q 019893          155 ALSIIRLRADLQKAIDSENYALAADLRDQICKLEAESLA  193 (334)
Q Consensus       155 a~qL~~Lk~~Lq~aI~~E~yE~AA~LRD~Ik~LE~~~~a  193 (334)
                      ...|.+|+.+|++|.++.+||+||.+||+|+.|++.+.+
T Consensus        16 ~k~i~~Le~~M~~aa~~l~FE~AA~~RD~I~~l~~~l~~   54 (56)
T d1e52a_          16 QQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRELFIA   54 (56)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHh
Confidence            456888999999999999999999999999999988764