Citrus Sinensis ID: 010943

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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-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------
Protein Sequence
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
Secondary Structure (PSIPRED)
ccccccccccccHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHcccccccccHHHHHHHHcccccccccccccccccccccHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEcccccHHHHHHHHHHHHHHHHccccccEEEEEEccccccccccccHHHHHHHHHHccccEEEccccEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccccccccccccccccccHHHcccccccccccccEEEEEcccEEcEccccccccccccccccccccccccccccccHHHHcccccccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEcccccHHHHHHHHHHHHHHHHHcccccEEEEEEEccccccccccccHHHHHHHHHccccEEcccccEEEEEEEccccccEEEEccc
Coil and Loop (DISEMBL)
mevsgskglnydieekalngsvFTMQEIALACRnagrnpdlageslcdkqanastssihpstgeargkesskssnsniseksfyangkskppktkwhpvsggtvssflgkdyvkpaqptngtglaskplkldpkefpmsalwgeetkpkqskgdHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICstfggsqreRKLQQLNssggrakedpntnkgellkhpkdrNELQKEVFAALFsapkksdefpeIMVKTKRRSkalgkvvsgppedlvpeYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFetsgrnrdtknDLLLDLHDHGAKEAIRLLKCHlsslsgiptiKYLKVILEMndedttkggrRRRVMKLLEEESIewteegnagtilipldkvnpktlsftkk
Flexible Loop (DISEMBL)
mevsgskglnydiEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANastssihpstgeargkesskssnsniseksfyangkskppktkwhpvSGGTVSSFLGKDYVKPAqptngtglaskplkldpKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTkflgkssekCMDICStfggsqrerKLQQLNssggrakedpntnkgellkhpkdrnELQKEVFAAlfsapkksdefpeIMVKTkrrskalgkvvsgppedlVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAreadeesnkkifetsgrnrdtknDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILemndedttkggrrrrVMKLLEEesiewteegnagtilipldkvnpktlsftkk
Low Complexity Region (SEG)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGkesskssnsniseksFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLeeesiewteeGNAGTILIPLDKVNPKTLSFTKK
Disordered region (IsUnstruct)
************IEEKALNGSVFTMQEIALACRN*******************************************************************************************************************************DFLFKLLGEGFQLSRDVIREVLDSCGYDMQ*****************************DIC*****************************************************************************************YKANVVHLQ*****IA**VEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFY***************************LLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMN***************LL***SIEWTEEGNAGTILIPLD************
Disordered Region (DISOPRED)
*****************LNGSVFTMQEIALACRNAGRNPDLAGESL********************************************************TVSSFLGKDY******************LDPKEF**************************FLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSK*****************************************************************************************************************************************DSFQHLRTAVMEYRGTMKEYCK***************KLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSS****PTIKYLKVILEMND***********VMKLLEEESIEWTEEGNAGTILIPLDKVNPK*******
Disordered Region (DISEMBL)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDK****************************ISEKSFYA************PVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEE**********LQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKA********KKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
Disordered Region (DISPRO)
**********YDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQ*******************************************TKWHPVSGGTVSSFLGKDYVK******************PKE*P***LW***********DHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS**************************************************************NELQKEVFAALFSAPK************************************NVVH*********DNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSF***
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
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

No hits with e-value below 0.001 by BLAST

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	497
255556035	501	conserved hypothetical protein [Ricinus	0.971	0.964	0.558	1e-144
224079237	505	predicted protein [Populus trichocarpa]	0.985	0.970	0.513	1e-122
224125304	504	predicted protein [Populus trichocarpa]	0.995	0.982	0.507	1e-122
356549339	496	PREDICTED: uncharacterized protein LOC10	0.973	0.975	0.477	1e-109
357446573	487	hypothetical protein MTR_2g013430 [Medic	0.957	0.977	0.438	2e-92
449433849	504	PREDICTED: uncharacterized protein LOC10	0.935	0.922	0.432	3e-87
224128350	703	predicted protein [Populus trichocarpa]	0.943	0.667	0.406	5e-86
255575308	511	ATP binding protein, putative [Ricinus c	0.923	0.898	0.379	2e-64
240255350	490	protein silencing defective 5 [Arabidops	0.907	0.920	0.352	1e-60
297789469	468	hypothetical protein ARALYDRAFT_497335 [	0.863	0.916	0.348	5e-60

>gi|255556035|ref|XP_002519052.1| conserved hypothetical protein [Ricinus communis] gi|223541715|gb|EEF43263.1| conserved hypothetical protein [Ricinus communis]

 Score =  518 bits (1335), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 274/491 (55%), Positives = 350/491 (71%), Gaps = 8/491 (1%)

Query: 12  DIEEKALNG-----SVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEAR 66
           DIE KAL G     S F++Q++  A   A RN DLAGE L D Q +ASTS      GEAR
Sbjct: 12  DIETKALKGLSEPLSSFSLQDVTSAYHKADRNVDLAGEPLYDMQGSASTSLSSAPNGEAR 71

Query: 67  GKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLAS 126
           G E  + S  NISE+S  ANGK + PK KW PVSGGTVSS LGKDY+K     NGT + +
Sbjct: 72  GVEFLRPSYGNISEQSHPANGKFRAPKQKWRPVSGGTVSSILGKDYMKSVPAGNGTCMGT 131

Query: 127 KPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSC 186
           KP+KLD K  PMS LWGEE +   S+  H+QK++EDFLFK+LG+GFQL RDVI  VLD C
Sbjct: 132 KPMKLDAKVLPMSELWGEEPEMNSSRNAHMQKDVEDFLFKMLGDGFQLDRDVIHRVLDQC 191

Query: 187 GYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAK 246
           GYDMQKSM +L+D SA TL E  K  G+S+EK + + S    S  E++   ++S  G A 
Sbjct: 192 GYDMQKSMERLLDFSAITLDEGNKCPGESTEKIVGVHSNSKESSCEKRSLPMSSLMGYAN 251

Query: 247 EDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPP 306
              N N+G LLK  ++RNE+QKEV  ALF+AP++++E      +   RS+A G++V  PP
Sbjct: 252 GTSNINEGGLLKE-EERNEVQKEVLVALFNAPERAEELSRRKARAGTRSRAFGELVVEPP 310

Query: 307 EDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDH 366
            D + E  ++ +  + DN N  D  EEDS+Q LR AV EYR TMKEY KAA++AFA GD+
Sbjct: 311 TDFILEPNSHPIGSKLDNDNNVDEEEEDSYQLLRRAVKEYRVTMKEYYKAAVNAFANGDY 370

Query: 367 VQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKC 426
            +A KL+++G FF+EKAR+ADEES++KIFET  +N DT+++L LDLHDHGAKEA+RLLKC
Sbjct: 371 DRANKLMDKGHFFHEKARKADEESSQKIFET--KNVDTRDELTLDLHDHGAKEAMRLLKC 428

Query: 427 HLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDK 486
           HLSSLSGI +IKYLKVI+E ++EDT+KG RRR VMKLLE+ESI+W+E GNAG+IL+ LD 
Sbjct: 429 HLSSLSGIASIKYLKVIIETDEEDTSKGARRRVVMKLLEKESIKWSEGGNAGSILVRLDN 488

Query: 487 VNPKTLSFTKK 497
           +N K LSF K+
Sbjct: 489 INQKGLSFAKR 499

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224079237|ref|XP_002305804.1| predicted protein [Populus trichocarpa] gi|222848768|gb|EEE86315.1| predicted protein [Populus trichocarpa]

 Score =  446 bits (1148), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 263/512 (51%), Positives = 342/512 (66%), Gaps = 22/512 (4%)

Query: 1   MEVSGSKGLNYDIEEKALNG------SVFTMQEIALACRNAGRNPDLAGESLCDKQANAS 54
           MEVS S  L  D EEKAL G      S F++++IA A   AGRN D + + L D + ++ 
Sbjct: 1   MEVSASNILKCDDEEKALKGLLEAFGSEFSLEQIASAYCKAGRNADFSVQILLDMEGSSP 60

Query: 55  TSSIHPSTGEA-RGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYV 113
           TSS H S GEA   ++SS+SSN  I +K   AN K K  K KWHPVSGGTVSS LGK Y+
Sbjct: 61  TSSSHSSIGEAMENQKSSESSNDYIPKKKCDANEKFKTVKQKWHPVSGGTVSSVLGKSYI 120

Query: 114 KPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQ 173
                 N + +A+KPLKLD +EFPMS LWGEE K  QSK DH+ K+MEDFLF +LG+GFQ
Sbjct: 121 TSMPVANSSCVATKPLKLDAQEFPMSELWGEEPKQTQSKHDHMHKDMEDFLFNMLGDGFQ 180

Query: 174 LSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRER 233
           L R VI++VLD+CGYDM+KSM +L++ S     +  K++G S+ K  D+ S +G    ++
Sbjct: 181 LERGVIQQVLDACGYDMEKSMEELLNLSGVISDKSNKYVGSSTGKFTDVQSNYGRPSCKK 240

Query: 234 KLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKR 293
            LQ ++S GG +    N N+GEL    K+RN LQ EV  ALFSA ++S+E      K +R
Sbjct: 241 NLQSMSSHGGIS----NANRGELPGLGKERNNLQNEVLTALFSAAERSEELSRRKTKAER 296

Query: 294 RSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIA---DNVEEDSFQHLRTAVMEYRGTM 350
           RS   G+ V+ P  D   E KA+ V+ QQD   ++   D   EDS+Q LR A  EYR TM
Sbjct: 297 RSIVYGEPVAEPLTDFTLENKADSVYSQQDYDKVSSVEDKDGEDSYQLLRKAWKEYRATM 356

Query: 351 KEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLL 410
            EY KA  DAFA+GD+ +A KL+++G FF +KA E DEES +KIFE+  +N +T++++LL
Sbjct: 357 NEYYKAGGDAFAKGDYERANKLMDEGLFFRDKAHEVDEESTQKIFES--KNVETQDEMLL 414

Query: 411 DLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDE-----DTTKGGRRRRVMKLLE 465
           DLH++G K+AIR L+ +L  LSGIP+ KYLKVI+E N E     D TKG RRR +MKLLE
Sbjct: 415 DLHEYGTKDAIRSLRSNLLLLSGIPSFKYLKVIIESNKEDVTKRDVTKGARRRLIMKLLE 474

Query: 466 EESIEWTEEGNAGTILIPLDKVNPKTLSFTKK 497
           +ESIEWT EG+ GTILI LD +NPK LSF KK
Sbjct: 475 KESIEWT-EGDIGTILIQLDNINPKRLSFAKK 505

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125304|ref|XP_002329772.1| predicted protein [Populus trichocarpa] gi|222870834|gb|EEF07965.1| predicted protein [Populus trichocarpa]

 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 257/506 (50%), Positives = 330/506 (65%), Gaps = 11/506 (2%)

Query: 1   MEVSGSKGLNYDIEEKALN------GSVFTMQEIALACRNAGRNPDLAGESLCDKQANAS 54
           MEVS S  L  D EEKAL       GS F++++IA A   AGRN DL  + L D +  AS
Sbjct: 1   MEVSTSNILKCDDEEKALEVLLEAFGSKFSLEQIASAYCKAGRNADLTVQILQDTEGGAS 60

Query: 55  TSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVK 114
           TSS H S GEA   E S  S++    K   ANGK +  K KW PVSGGTVSS LGK Y++
Sbjct: 61  TSSSHSSNGEAMLSEGSSESSNGYILKKCDANGKFRNVKQKWRPVSGGTVSSVLGKSYIR 120

Query: 115 PAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQL 174
                NG+  A+KPLKLD +EFPMS LWGEE K  QSK D + ++MEDFLFK+LG+GFQL
Sbjct: 121 SMPVGNGSCAATKPLKLDSQEFPMSELWGEEPKQTQSKHDRMHEDMEDFLFKMLGDGFQL 180

Query: 175 SRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERK 234
            R++IR+ LD+CGYDMQKSM KL++ SA  L ++  ++G+S+ K  D  S  GG   ++ 
Sbjct: 181 DREMIRQALDTCGYDMQKSMEKLLNLSAVILDKRNNYVGRSTGKFTDARSNSGGPSCQKN 240

Query: 235 LQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRR 294
           LQ ++S GG A    N N G      K+RN LQKE+ A+LF+  ++S E    + K +RR
Sbjct: 241 LQFMSSYGGSANRISNANGGGSPGQGKERNNLQKEILASLFNGAERSGELSGRITKAERR 300

Query: 295 SKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIA---DNVEEDSFQHLRTAVMEYRGTMK 351
           S   G+ V  PP D   E + + +   QD  N+    D  E+DS+  LR A  EYR TM 
Sbjct: 301 SIVYGEPVVEPPTDFTLENRTDFMDSLQDYDNVLSVEDVDEDDSYHLLRKAWKEYRTTMN 360

Query: 352 EYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLD 411
           E+ KAA DAFA+GD  +A KL+++G FF +KA E DEES +KIF T  +N +T++ +LLD
Sbjct: 361 EFYKAAGDAFAKGDDERANKLMDEGNFFRDKAYEVDEESTQKIFGT--KNVETQDQMLLD 418

Query: 412 LHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEW 471
           LH+HGAK+AIR LK +   LSGIP+ K LKVI+E N+ D TKG RRR +MKLLE+ESI W
Sbjct: 419 LHEHGAKDAIRSLKSNFLLLSGIPSFKDLKVIIETNEVDVTKGARRRLIMKLLEKESINW 478

Query: 472 TEEGNAGTILIPLDKVNPKTLSFTKK 497
           TE  + GTILI LD +NPK LSF KK
Sbjct: 479 TEGADVGTILIQLDNINPKRLSFAKK 504

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549339|ref|XP_003543051.1| PREDICTED: uncharacterized protein LOC100808122 [Glycine max]

 Score =  402 bits (1032), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 242/507 (47%), Positives = 324/507 (63%), Gaps = 23/507 (4%)

Query: 1   MEVSGSKGLNYDIEEKALN------GSVFTMQEIALACRNAGRNPDLAGESLCDKQANAS 54
           MEVSG   +  D EEKAL       GSVF+++EIA A   A RN DLAGE L + + ++S
Sbjct: 1   MEVSGQNIVKCD-EEKALKCLLDAFGSVFSLEEIASAYCKASRNADLAGEMLYEMKGSSS 59

Query: 55  TSSIHPS--TGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDY 112
            SS        +   + SS+SS++   E SF     S+P   K  P+S GTVSS +GKDY
Sbjct: 60  GSSTTLDSSNADVMTEGSSESSDAYSLENSFQERKTSRP---KGRPISMGTVSSVIGKDY 116

Query: 113 VKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQS--KGDHLQKEMEDFLFKLLGE 170
            +PA+  NG+  + KP KLD K  PM+ +W E+ K   S  K D L ++MEDFLFK+LGE
Sbjct: 117 GRPARSANGSFASVKPTKLDAKSLPMTGIWREKGKADVSISKHDQLHQDMEDFLFKMLGE 176

Query: 171 GFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQ 230
           GFQL R++IR+VLD+CGYD+QKS+ KL+D S    G++T  +G S+ +  D+        
Sbjct: 177 GFQLDRNMIRQVLDTCGYDIQKSLRKLLDRSNMASGKRTAVVGDSAGRFTDMKPKSEAPS 236

Query: 231 RERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVK 290
            +RK Q LN + G      +T + E     K ++ LQK V + LF+    S+E P+  VK
Sbjct: 237 TQRKSQDLNYTRGDGN-IASTKEAEF--QQKQKHNLQKAVLSTLFNYQGHSEEAPKRTVK 293

Query: 291 TKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTM 350
              +    G VV  PP+D   E+  ++   +Q  +NI D  +E+ ++++R AV EYRGTM
Sbjct: 294 DFNKKSRYGHVVFEPPKDFPEEFDFDMDFSRQ--ENIDDPEDEEEYKNVRRAVKEYRGTM 351

Query: 351 KEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLL 410
            EY KAA+D+FA+GD ++AEKLLEQG+FF  KA +ADEESNK I ET  RN + + +++L
Sbjct: 352 NEYYKAAVDSFAKGDQMKAEKLLEQGQFFLRKAHDADEESNKMILET--RNTEAQ-EMVL 408

Query: 411 DLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRR-RVMKLLEEESI 469
           DL DHG+KEAIRLLKCHLSSLSGIP+ +YLKVI++ ND+D TKG RRR RV KLLE+ESI
Sbjct: 409 DLRDHGSKEAIRLLKCHLSSLSGIPSFEYLKVIVDANDKDNTKGSRRRLRVFKLLEQESI 468

Query: 470 EWTEEGNAGTILIPLDKVNPKTLSFTK 496
            W E   A TILI L  +  K LSF K
Sbjct: 469 TWVEGETADTILIRLASIERKRLSFVK 495

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357446573|ref|XP_003593562.1| hypothetical protein MTR_2g013430 [Medicago truncatula] gi|355482610|gb|AES63813.1| hypothetical protein MTR_2g013430 [Medicago truncatula]

 Score =  345 bits (886), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 222/506 (43%), Positives = 309/506 (61%), Gaps = 30/506 (5%)

Query: 1   MEVSGSKGLNYDIEEKALN------GSVFTMQEIALACRNAGRNPDLAGESLCDKQANAS 54
           MEV+G   + YD E++AL       G   ++ +IA A   A RN +LAGE L D + ++S
Sbjct: 1   MEVAGQNMVAYD-EDQALKCLYDVFGGSCSLDDIAHAYCKANRNVNLAGEILYDMKGSSS 59

Query: 55  TSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVK 114
           TS  H S  +A  K SS+SS+    E SF+ +  S+P   K  PVS GTVSS +GK YV+
Sbjct: 60  TSGNHSSNSDAFEK-SSESSDGQSFESSFHGSKNSRP---KVRPVSAGTVSSVIGKSYVR 115

Query: 115 PAQPTNGTGLASKPLKLDPKEFPMSALWGEET--KPKQSKGDHLQKEMEDFLFKLLGEGF 172
               T+G  + +KP KLD K+ PM+ ++ E +  KP  SK D LQ++ME+FLFK+LG GF
Sbjct: 116 STPSTSGPKVMTKPPKLDAKDLPMTGIYRETSVSKPNSSKRDQLQEDMEEFLFKMLGVGF 175

Query: 173 QLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRE 232
           +L R +IREVLD CGYD+QKS+  L+D S     ++   +  SS K  D+ +       E
Sbjct: 176 KLDRKMIREVLDMCGYDLQKSLDTLLDQSVMDSDKRPAAVCDSSVKFADVKTKSEAPVSE 235

Query: 233 RKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVK-- 290
           +K Q LN   G    D N      +   K+  ++QKEV + LFS  +  +E  + +V+  
Sbjct: 236 KKSQDLNCIRG----DGN------IVSVKETRDIQKEVLSNLFSYREYVEEPRKRIVRDV 285

Query: 291 TKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTM 350
            K+    +G VV  PP+D + E+K ++   +++N++ A++  E  +Q  R AV EYR TM
Sbjct: 286 NKKSPYGVGHVVFEPPKDTMEEHKIDMDFRRRENEDDAED--EADYQSARKAVKEYRVTM 343

Query: 351 KEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLL 410
           KEY KAA+DAFA GD  +AEKLL+QG+F+  KAREAD+E +K I ET     +   +++L
Sbjct: 344 KEYYKAAVDAFANGDQAKAEKLLDQGQFYLNKAREADDECSKMILETKA---EETQEMVL 400

Query: 411 DLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIE 470
           DL DH  K AIRLLK HLSSLSGI + +YLKVI + ND+   K   R  V+KLLE+ESI+
Sbjct: 401 DLRDHEPKVAIRLLKTHLSSLSGISSFEYLKVIFDANDQANKKRSTRVMVLKLLEQESIK 460

Query: 471 WTEEGNAGTILIPLDKVNPKTLSFTK 496
           W E   AGTILI LD ++   LSF K
Sbjct: 461 WVEGETAGTILIRLDNIDRNRLSFYK 486

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433849|ref|XP_004134709.1| PREDICTED: uncharacterized protein LOC101206014 [Cucumis sativus]

 Score =  328 bits (842), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 210/485 (43%), Positives = 296/485 (61%), Gaps = 20/485 (4%)

Query: 20  GSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNIS 79
           GS F+++EIA A   AG   DLAGE L   Q + S+S++    G        K     +S
Sbjct: 29  GSKFSLEEIASAYFKAGYKADLAGEILFQMQESTSSSALSDDVGNGDNLGKGK-----VS 83

Query: 80  EKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMS 139
           EK +   G  K  K+K    S GTVS+ +GK+Y       N     +KP+K++ K    S
Sbjct: 84  EKKYQVKGNLKAAKSKVQSFSTGTVSNIIGKEYACSKPSGNKFTKVNKPVKVEVKVLHES 143

Query: 140 ALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID 199
           +  G+ T    S  D L  EMEDFLFK+LG+GF+L R+VIREV+ +CGYDM++SM  L++
Sbjct: 144 SSEGDCTSLP-SDFD-LHHEMEDFLFKMLGDGFRLKREVIREVIGTCGYDMKESMENLLN 201

Query: 200 HSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKG----- 254
            S   + E+     KS++     CS       +R   + +  GG +    N N       
Sbjct: 202 RSTTPVDERLGSGNKSTDMTAASCSRSDSISCQRNKAENHYPGGSS---WNGNLASSKKV 258

Query: 255 -ELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRS-KALGKVVSGPPEDLVPE 312
            EL    K R++LQKEV  AL++A ++ +E        +R+   A G++VS P +D+  E
Sbjct: 259 LELTNLEKTRSDLQKEVLTALYNASEEPEEESPRRTVPRRKQFGAYGQLVSEPFKDVDAE 318

Query: 313 YKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKL 372
            +  V +  Q + ++    EE+S+Q LR AV EYRGTMKEY  AAIDAFA+GD V+A KL
Sbjct: 319 REKPVEYNDQIDLDVEVEDEENSYQLLRKAVREYRGTMKEYYAAAIDAFAKGDSVRAAKL 378

Query: 373 LEQGKFFYEKAREADEESNKKIFETSGRNRDTKND-LLLDLHDHGAKEAIRLLKCHLSSL 431
           +++G FF++KA+EAD++SN+ IFE   R+ DT++D +LLDLHD G KEA+++LK  +SSL
Sbjct: 379 IDEGHFFHKKAQEADKQSNQLIFEP--RHADTEDDEMLLDLHDLGGKEAVKVLKSQISSL 436

Query: 432 SGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKT 491
           SGIP+IK+LKVI+E +D++T+K   RR VMKLLE+ESIEWTEE N   ILI LD ++ K 
Sbjct: 437 SGIPSIKHLKVIMEADDKNTSKRSCRRLVMKLLEKESIEWTEEENGSYILIHLDTIDRKR 496

Query: 492 LSFTK 496
           LSF K
Sbjct: 497 LSFVK 501

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128350|ref|XP_002329140.1| predicted protein [Populus trichocarpa] gi|222869809|gb|EEF06940.1| predicted protein [Populus trichocarpa]

 Score =  324 bits (831), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 201/495 (40%), Positives = 303/495 (61%), Gaps = 26/495 (5%)

Query: 20  GSVFTMQEIALACRNAGRNPDLAGESLCDKQ-ANASTSSIHPSTGE-------ARGKESS 71
           GS F++++I+ A  +A  + +LAGE+LC    +N++T++   S  E       A G++S 
Sbjct: 25  GSGFSLEDISSAFVSANFDKNLAGETLCGIHGSNSTTANTGKSEAENAVSMKLASGRDSM 84

Query: 72  KSSNSNISEKSF----YANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASK 127
           +   S +S K F         ++  K+K +PVS G VSS LGK+Y KP   T+ +  A+K
Sbjct: 85  RPMFSELSPKVFKMAPIGEKDTREFKSKSYPVSMGAVSSVLGKEYAKPKPLTHRSVEATK 144

Query: 128 PLKLDPKEFPMSALWGEETKPKQ-SKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSC 186
           PLKLD K+FP+S +W E+  P   ++   +Q  +E+FLF++LG GFQL   +I+EVL  C
Sbjct: 145 PLKLDSKDFPVSDVWREKNPPSMVARHGIMQAGVEEFLFQMLGNGFQLDMTLIQEVLGRC 204

Query: 187 GYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLN----SSG 242
           GYD+QKS+ +L++ SA TL +    +  + E+    CS       + + QQL     S G
Sbjct: 205 GYDIQKSIDELLELSASTLEKSDDAVSMAMEESTKQCSDQESLSLQEQTQQLRGTQRSDG 264

Query: 243 GRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVV 302
            R  ++  T     LK   +R  L++E+  +LF  P++S+E P+     ++     GK  
Sbjct: 265 ARLHKENLTGS---LKREHNRVSLEREILQSLFDLPERSEEAPKKTRLVRQARSVFGKPA 321

Query: 303 SGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFA 362
             P +D   E+K +      D +  A+  +E+S++ LR AV EY  T KE+ KAA DAFA
Sbjct: 322 VTPHKDTAKEHKPSAAKPLADTRGEAEG-DENSYEVLRKAVKEYWITKKEFYKAAADAFA 380

Query: 363 QGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIR 422
           +GDH +A+KL++QG+FF EKAREADE+S +K+ ET    RD +  + LDL     KEA+ 
Sbjct: 381 EGDHARADKLMDQGQFFNEKAREADEKSFQKLMET----RDDEI-VSLDLLGFEPKEALH 435

Query: 423 LLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILI 482
            L+ HL+S SGIP+IKYL+V++E +++DTTKG RRR +MK LE+ESI+WT+EGN   ILI
Sbjct: 436 SLRFHLTSFSGIPSIKYLRVVIENDEKDTTKGKRRRLIMKQLEKESIKWTDEGNGQIILI 495

Query: 483 PLDKVNPKTLSFTKK 497
            +D ++PK LSF +K
Sbjct: 496 QVDAIDPKHLSFAEK 510

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575308|ref|XP_002528557.1| ATP binding protein, putative [Ricinus communis] gi|223532001|gb|EEF33812.1| ATP binding protein, putative [Ricinus communis]

 Score =  253 bits (645), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 199/524 (37%), Positives = 284/524 (54%), Gaps = 65/524 (12%)

Query: 9   LNYDIEEKA-LNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARG 67
           ++ D+EE   + G  F++++I  A   A ++ +LA E+LC    + ST+         R 
Sbjct: 13  MDKDLEELIEVFGCKFSLKDITFAYFQARQDKNLAAETLCSLDGSTSTTITAKMLAAERA 72

Query: 68  ---KESSKSSNSNISE-----KSFYANGKSKPPKTK-------WHPVSGGTVSSFLGKDY 112
              K +S S N+ +        SF  N      +TK          V  G+VS  +GK+Y
Sbjct: 73  APMKLASWSDNTGVVSLESPSGSFLENAVEGEKRTKELKSKKCSASVGSGSVSCMIGKEY 132

Query: 113 VKPAQPTN------GTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFK 166
            K +   N       +G++   L    +  P                   Q ++E+FLFK
Sbjct: 133 AKSSLLKNEAIESLRSGVSKIHLCTTVRNVPA------------------QADLEEFLFK 174

Query: 167 LLGEGFQLSRDVIREVL-------DSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKC 219
           +LGEGFQL   VI+EVL          G+D+QKSM +L+D      G K + LG + E  
Sbjct: 175 MLGEGFQLDVPVIQEVLALNGSPGKRRGHDVQKSMDRLLDSLVAPFG-KCEDLGIAVEDS 233

Query: 220 MDICSTFGGSQRERKLQQLN---SSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFS 276
              CS    +  + +LQQL+   S G R  E   T   E     K+R  LQKEV   LF 
Sbjct: 234 AGECSDQEYALLQGQLQQLDFAQSDGARLMERTLTGSTE---TEKNRIGLQKEVLQTLFD 290

Query: 277 APKKSDEFPE--IMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEED 334
            P +S+E P+   +V+  ++ K   K+V  PPED   + K +    Q  N+   DN  +D
Sbjct: 291 FPGRSEEAPKRTRLVRAVKKPKVFSKLVFEPPEDATRQDKHSAAESQAVNRE-EDN--DD 347

Query: 335 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKI 394
           S++ LRTAV EY  TMKEY KAA+DAF  GDH +A KLLE+G+FF  KAR AD++S +K+
Sbjct: 348 SYEVLRTAVKEYWFTMKEYYKAAVDAFVNGDHARANKLLEKGQFFNNKARAADDKSFQKL 407

Query: 395 FETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKG 454
            ET  R+ D    + LDLH    KEA+RLL+ HL+S+SGI +IKYL+VI++ NDEDT+KG
Sbjct: 408 VET--RDADV---MSLDLHGLEPKEALRLLRLHLTSISGILSIKYLRVIIKSNDEDTSKG 462

Query: 455 GRRRR-VMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK 497
            R+R  ++K LE+ESI+W +E +  TILI +D ++PK LSF KK
Sbjct: 463 ARKRNLILKQLEKESIKWNDESDGKTILIQVDAIDPKRLSFAKK 506

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240255350|ref|NP_188158.4| protein silencing defective 5 [Arabidopsis thaliana] gi|15795104|dbj|BAB02368.1| unnamed protein product [Arabidopsis thaliana] gi|332642141|gb|AEE75662.1| protein silencing defective 5 [Arabidopsis thaliana]

 Score =  240 bits (612), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 174/493 (35%), Positives = 275/493 (55%), Gaps = 42/493 (8%)

Query: 20  GSVFTMQEIALACRNAGRNPDLAGESL---------CDKQANASTSSIHPSTGEARGKES 70
           GS F++ +IA A   A +N D+AGE L         CD Q    T++  P T     KE 
Sbjct: 25  GSRFSLDDIAAAYCQASQNVDVAGEILSAMAEKTPQCD-QVEMKTATSKP-TQVYVPKEV 82

Query: 71  SKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLK 130
            +  +S           K+K  + K + +S GTVSS +GK+Y +    +N    A+KPLK
Sbjct: 83  PRQEDS-----------KAKVWRPKRNSISNGTVSSVIGKEYARTRPISNAPKEATKPLK 131

Query: 131 LDPKEFPMSALWGEET-KPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYD 189
           ++ ++ P + +W EE  K  + K      ++E+F+ K+LGEGFQ S++VI +VL  CGYD
Sbjct: 132 INSRDIPETEIWSEEMRKSNEGKISRAPTDVEEFIVKMLGEGFQASQEVIHQVLGVCGYD 191

Query: 190 MQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDI-CSTFGGSQRERKLQQLNSSGGRAKED 248
           ++KS  KL+D S     +K   +G S+E    +       S  + +LQ+++ S G A+  
Sbjct: 192 VKKSTEKLLDFSD---TKKYADVGISNEVMSKVDPQRQSTSCNQMELQKISQSVG-ARTF 247

Query: 249 PNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKT-KRRSKALGKVVSGPPE 307
             + +G   K     N L+KEV  ALFS  ++  + P++     +RR    G+ V  P E
Sbjct: 248 TGSQEGRNAK-----NGLEKEVLEALFSGAERYVDKPKVTRHFGERRPGVAGRPVFKPLE 302

Query: 308 DLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHV 367
           D    ++  VV ++Q +    ++ +E+ F+  R AV E+   MKEY  AA +AF++G+  
Sbjct: 303 D---PFQERVVAVKQSSNTSKEDDDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETE 359

Query: 368 QAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLL 424
           +A +L+E+G FF +KAREAD++S  K+ + +  +  T  +   + +++++H AKEA+RLL
Sbjct: 360 RAHRLVEKGHFFGQKAREADDKSVAKMIDVNQEDDSTYEEDEVVTVNMNEHEAKEALRLL 419

Query: 425 KCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPL 484
           K  L   SGI + KYL+V L    ED     +R+ ++KLLE ESI WTEE     I+I +
Sbjct: 420 KRQLIYFSGISSFKYLRVQLGEKKEDFK--SKRKHIVKLLEGESIPWTEEDGGLVIMIRV 477

Query: 485 DKVNPKTLSFTKK 497
           D+++PK LSF KK
Sbjct: 478 DEIDPKKLSFAKK 490

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297789469|ref|XP_002862698.1| hypothetical protein ARALYDRAFT_497335 [Arabidopsis lyrata subsp. lyrata] gi|297308373|gb|EFH38956.1| hypothetical protein ARALYDRAFT_497335 [Arabidopsis lyrata subsp. lyrata]

 Score =  238 bits (607), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 172/493 (34%), Positives = 266/493 (53%), Gaps = 64/493 (12%)

Query: 20  GSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGK-ESSKSSNSNI 78
           GS F++ +IA A   A +N D+AGE L       + +   P       K E+SK S   +
Sbjct: 25  GSRFSLDDIAAAYCQASQNVDVAGEILF------AMTEKTPQCDHVEMKNETSKPSQVYV 78

Query: 79  -SEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFP 137
             E     + K+K  + K + +S GTVSS +GK+Y +    +N    A+KP+K+D ++ P
Sbjct: 79  PKEVRRQEDSKAKVWRPKRNSISVGTVSSVIGKEYARTRPISNAPREATKPMKIDSRDIP 138

Query: 138 MSALWGEET-KPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSK 196
            + LW EE  K  + K +    ++E+F+ K+LGEGFQ S+DVI +VL  CGYD++KS  K
Sbjct: 139 ETELWSEEMPKSNEPKTNRAPTDVEEFIVKMLGEGFQASQDVIHQVLGVCGYDVKKSTEK 198

Query: 197 LIDHSAETLGEKTKF--LGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKG 254
           L+D     L +  K+  +G S+E  +  C  F          +  S  GR          
Sbjct: 199 LLD-----LSDTKKYADVGISNE-VVSFCYDF----------KFGSEEGR---------- 232

Query: 255 ELLKHPKDRNELQKEVFAALFSA-------PKKSDEFPEIMVKTKRRSKALGKVVSGPPE 307
                   +N L+KEV  ALFS        PK +  F E      RR +  G+ V  P E
Sbjct: 233 ------NAKNGLEKEVLEALFSGTERYVGEPKVTRHFGE------RRPRVAGRPVFKPLE 280

Query: 308 DLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHV 367
           D    ++  VV +++ +    ++ +E+ F+  R AV E+   MKEY  AA +AF++G+  
Sbjct: 281 D---PFQERVVAVKKSSNTSKEDEDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETE 337

Query: 368 QAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLL 424
           +A +L+E+G FF +KAREAD++S  K+ +    +  T  +   + +++++H  KEA+RLL
Sbjct: 338 RAHRLVEKGHFFGQKAREADDKSIAKMIDVKKDDDSTYEEDEVVTVNVNEHETKEALRLL 397

Query: 425 KCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPL 484
           K  L+  SGI + KYL+V L    ED     +R+ ++KLLE ESI WTEE +   ++I +
Sbjct: 398 KRQLNFFSGISSFKYLRVALGDKKEDFK--SKRKHIVKLLEGESIAWTEEDSGLVMMIRV 455

Query: 485 DKVNPKTLSFTKK 497
           DK++PK LSF KK
Sbjct: 456 DKIDPKKLSFAKK 468

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	497
TAIR|locus:2090181	490	SDE5 "AT3G15390" [Arabidopsis	0.923	0.936	0.329	3.6e-57
TAIR|locus:2178878	519	AT5G58720 "AT5G58720" [Arabido	0.843	0.807	0.272	1.2e-22

TAIR|locus:2090181 SDE5 "AT3G15390" [Arabidopsis thaliana (taxid:3702)]

 Score = 588 (212.0 bits), Expect = 3.6e-57, P = 3.6e-57
 Identities = 160/485 (32%), Positives = 263/485 (54%)

Query:    20 GSVFTMQEIALACRNAGRNPDLAGESLCDK-QANASTSSIHPSTGEARGXXXXXXXXXXX 78
             GS F++ +IA A   A +N D+AGE L    +       +   T  ++            
Sbjct:    25 GSRFSLDDIAAAYCQASQNVDVAGEILSAMAEKTPQCDQVEMKTATSKPTQVYVPKEVPR 84

Query:    79 XXXXFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPM 138
                    + K+K  + K + +S GTVSS +GK+Y +    +N    A+KPLK++ ++ P 
Sbjct:    85 QE-----DSKAKVWRPKRNSISNGTVSSVIGKEYARTRPISNAPKEATKPLKINSRDIPE 139

Query:   139 SALWGEET-KPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKL 197
             + +W EE  K  + K      ++E+F+ K+LGEGFQ S++VI +VL  CGYD++KS  KL
Sbjct:   140 TEIWSEEMRKSNEGKISRAPTDVEEFIVKMLGEGFQASQEVIHQVLGVCGYDVKKSTEKL 199

Query:   198 IDHSAETLGEKTKFLGKSSEKCMDIC-STFGGSQRERKLQQLNSSGGRAKEDPNTNKGEL 256
             +D S +T  +K   +G S+E    +       S  + +LQ+++ S G A+    + +G  
Sbjct:   200 LDFS-DT--KKYADVGISNEVMSKVDPQRQSTSCNQMELQKISQSVG-ARTFTGSQEGRN 255

Query:   257 LKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKT-KRRSKALGKVVSGPPEDLVPEYKA 315
              K     N L+KEV  ALFS  ++  + P++     +RR    G+ V  P ED  P ++ 
Sbjct:   256 AK-----NGLEKEVLEALFSGAERYVDKPKVTRHFGERRPGVAGRPVFKPLED--P-FQE 307

Query:   316 NVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQ 375
              VV ++Q +    ++ +E+ F+  R AV E+   MKEY  AA +AF++G+  +A +L+E+
Sbjct:   308 RVVAVKQSSNTSKEDDDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETERAHRLVEK 367

Query:   376 GKFFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLLKCHLSSLS 432
             G FF +KAREAD++S  K+ + +  +  T  +   + +++++H AKEA+RLLK  L   S
Sbjct:   368 GHFFGQKAREADDKSVAKMIDVNQEDDSTYEEDEVVTVNMNEHEAKEALRLLKRQLIYFS 427

Query:   433 GIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLXXXXXXXXXXGNAGTILIPLDKVNPKTL 492
             GI + KYL+V L    ED     +R+ ++KLL               I+I +D+++PK L
Sbjct:   428 GISSFKYLRVQLGEKKEDFKS--KRKHIVKLLEGESIPWTEEDGGLVIMIRVDEIDPKKL 485

Query:   493 SFTKK 497
             SF KK
Sbjct:   486 SFAKK 490

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0009507 "chloroplast" evidence=ISM

GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=TAS

TAIR|locus:2178878 AT5G58720 "AT5G58720" [Arabidopsis thaliana (taxid:3702)]

 Score = 286 (105.7 bits), Expect = 1.2e-22, P = 1.2e-22
 Identities = 131/481 (27%), Positives = 213/481 (44%)

Query:    24 TMQEIALACRNAGRNPDLAGESLCDKQANA---STSSIHP-STGEARGXXXXXXXXXXXX 79
             +M+E   A + AG + + A E L D   +    STSS+   S+G+               
Sbjct:    65 SMEEAMAAYKEAGGDLNKAAEILSDLVESGDDPSTSSVASGSSGQETASTSEYGAGSSSS 124

Query:    80 XXXFYANGK-SKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPM 138
                     +  K  K      + G VSS + KDY+KP            P++   KEFPM
Sbjct:   125 CSEDLTRDRWFKGSKQSRVIAATGMVSSVIAKDYLKP-----------NPVR---KEFPM 170

Query:   139 SALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLI 198
                  E     +   D  +++ E FL  +LG+  +LS  V+R+VL  CGYD+  +++ L+
Sbjct:   171 MERSKELCGNGKKAAD--REKAEQFLSSMLGDDCELSMAVVRDVLCQCGYDVDMALNVLL 228

Query:   199 DHSA----ETLGEKTKFLGKS---SEKCMDI----CSTF-GGSQRERKLQQLNSSGGRAK 246
             D S+    ++L  K   +G S   +E   D     C  F GG   +R   +   S     
Sbjct:   229 DMSSSSTDDSLSGKCFGIGVSDSLAESSFDTDTSDCELFWGGDYSQRDYAKALMSS---- 284

Query:   247 EDP-NTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALG-KVVSG 304
             +DP  T +G       D   L ++V  +LF+          I    K  SK    + V+ 
Sbjct:   285 QDPFATTQGI------DELGLPQKVLESLFN----------IRQNPKHESKTTSWRNVAK 328

Query:   305 PPEDLVPEYKANVVHLQQDNQNIADNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQG 364
               + L  +  A+    ++ + N    V++DS+  LR    +     K Y + A +A+++G
Sbjct:   329 KMQSLGID--ASSSSGEEPHPNTF--VKDDSYHELRKGANDQWNVTKSYYQKAAEAYSKG 384

Query:   365 DHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLL 424
                 A  L ++G+   ++A+ ADE +++ IF    RN+  +N + +DLH    K A++LL
Sbjct:   385 GRAHAAYLSDKGRVASKQAQRADERASQDIFVA--RNKGIENVVTIDLHGQHVKPAMKLL 442

Query:   425 KCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLXXXXXXXXXXGNAGTILIPL 484
             K HL   S +P+I+ L+VI         K   ++ V+KLL           N GT+LI L
Sbjct:   443 KLHLLFGSYVPSIQTLRVITGCGASGFGKSKVKQSVVKLLEREGVRYCEE-NRGTLLIKL 501

Query:   485 D 485
             D
Sbjct:   502 D 502


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.312   0.131   0.371    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      497       472   0.00099  118 3  11 23  0.47    34
                                                     35  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  611 (65 KB)
  Total size of DFA:  264 KB (2140 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  48.03u 0.11s 48.14t   Elapsed:  00:00:02
  Total cpu time:  48.03u 0.11s 48.14t   Elapsed:  00:00:02
  Start:  Tue May 21 05:17:26 2013   End:  Tue May 21 05:17:28 2013

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0006298 "mismatch repair" evidence=ISS

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

---

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	497
pfam08590	66	pfam08590, DUF1771, Domain of unknown function (DU	3e-07

>gnl|CDD|117164 pfam08590, DUF1771, Domain of unknown function (DUF1771)

 Score = 47.2 bits (113), Expect = 3e-07
 Identities = 20/62 (32%), Positives = 34/62 (54%)

Query: 335 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKI 394
            +Q LR    ++     E  + A +A+ +GD   A++L E+GK   EKA EA+ ++ + I
Sbjct: 1   EYQRLRAEADKHGQKRNELFQKAAEAYKRGDKAAAKELSEEGKKHGEKAEEANRQAAEAI 60

Query: 395 FE 396
           F 
Sbjct: 61  FR 62

This domain is always found adjacent to pfam01713. Length = 66

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	497
PF08590	66	DUF1771: Domain of unknown function (DUF1771); Int	99.64
smart00463	80	SMR Small MutS-related domain.	99.57
PF01713	83	Smr: Smr domain; InterPro: IPR002625 This family i	99.48
KOG2401	448	consensus Predicted MutS-related protein involved	98.95
COG2840	184	Uncharacterized protein conserved in bacteria [Fun	98.04
PRK04946	181	hypothetical protein; Provisional	97.97
PRK00409	782	recombination and DNA strand exchange inhibitor pr	97.42
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	97.28
KOG2401	448	consensus Predicted MutS-related protein involved	96.24
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	95.97
smart00546	43	CUE Domain that may be involved in binding ubiquit	94.9
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	94.83
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	89.88
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	89.7
PF08938	79	HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This	83.62
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	83.46
PF03474	39	DMA: DMRTA motif; InterPro: IPR005173 This region	81.53
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	80.37

>PF08590 DUF1771: Domain of unknown function (DUF1771); InterPro: IPR013899 This domain is almost always found adjacent to IPR002625 from INTERPRO

Probab=99.64  E-value=3.8e-17  Score=131.48  Aligned_cols=65  Identities=32%  Similarity=0.502  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 010943          335 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRN  401 (497)
Q Consensus       335 ~Y~~~R~~A~eh~~~Rne~f~kA~~AY~~Gd~a~A~~LSeqGk~~~~karean~~AA~~If~~r~~N  401 (497)
                      +|+.+|.+|.+|++.|++||++|++||++||++.|++||++||.|.++|+++|.+||++||..+  |
T Consensus         1 ~Y~~~R~~A~~~~~~r~~~~~~A~~Ay~~Gd~~~A~~ls~~gk~~~~~~~~~n~~AA~~I~~~~--N   65 (66)
T PF08590_consen    1 DYEKLRAEADEHARKRNECFQKAAEAYRRGDKAAAKELSEEGKQHNEKMKEANRQAAEAIFEER--N   65 (66)
T ss_dssp             --------------------------------------------------SHHHHHHHHHHHHH--H
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--c
Confidence            5999999999999999999999999999999999999999999999999999999999999999  7

; PDB: 2VKC_A.

>smart00463 SMR Small MutS-related domain

Probab=99.57  E-value=6.4e-15  Score=121.28  Aligned_cols=78  Identities=27%  Similarity=0.344  Sum_probs=68.2

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCC-CCccHHHHHHHHHHcCCceEeeCCCeEEEEEeC
Q 010943          408 LLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTT-KGGRRRRVMKLLEEESIEWTEEGNAGTILIPLD  485 (497)
Q Consensus       408 ~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g-~~k~kpAV~klL~kegi~w~e~~n~GvIlI~L~  485 (497)
                      ++|||||++|.||+..|+..|..+...+..+.+.||||+|+||.+ ...++++|.++|...+|.|.++.|.|+++|.|.
T Consensus         2 ~~lDLHG~~~~eA~~~l~~~l~~~~~~~~~~~~~II~G~G~~s~~g~~~i~~~l~~~l~~~~~~~~~~~~~G~~~v~l~   80 (80)
T smart00463        2 WSLDLHGLTVEEALTALDKFLNNARLKGLEQKLVIITGKGKHSLGGKSGVKPALKEHLRVESFRFAEEGNSGVLVVKLK   80 (80)
T ss_pred             CeEEcCCCCHHHHHHHHHHHHHHHHHcCCCceEEEEEcccCCCccchhhHHHHHHhchhhcccccCCCCCCeEEEEEeC
Confidence            689999999999999999999988764322689999999999984 456888999999999999987569999999874

>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein

Probab=99.48  E-value=3e-14  Score=118.07  Aligned_cols=73  Identities=29%  Similarity=0.449  Sum_probs=58.5

Q ss_pred             eecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCCceEe----------eCCCeE
Q 010943          410 LDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTE----------EGNAGT  479 (497)
Q Consensus       410 IDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi~w~e----------~~n~Gv  479 (497)
                      |||||++++||++.|+..|..+... ....++||||+|+||.++. ++++|.++|.+ ++.|.+          ..|.|+
T Consensus         1 iDLHG~~~~eA~~~l~~~l~~~~~~-~~~~~~II~G~G~hS~~g~-Lk~~V~~~L~~-~~~~~~v~~~~~~~~~~g~~G~   77 (83)
T PF01713_consen    1 IDLHGLTVEEALRALEEFLDEARQR-GIRELRIITGKGNHSKGGV-LKRAVRRWLEE-GYQYEEVLAYRDAEPEDGNSGA   77 (83)
T ss_dssp             EE-TTS-HHHHHHHHHHHHHHHHHT-THSEEEEE--STCTCCTSH-HHHHHHHHHHH-THCCTTEEEEEE--CCCTGGGE
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHHc-CCCEEEEEeccCCCCCCCc-HHHHHHHHHHh-hhccchhheeeecCCCCCCCeE
Confidence            8999999999999999999987654 3489999999999999886 99999999988 766543          139999


Q ss_pred             EEEEeC
Q 010943          480 ILIPLD  485 (497)
Q Consensus       480 IlI~L~  485 (497)
                      ++|.|.
T Consensus        78 ~~V~lk   83 (83)
T PF01713_consen   78 TIVYLK   83 (83)
T ss_dssp             EEEEE-
T ss_pred             EEEEeC
Confidence            999873

It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.

>KOG2401 consensus Predicted MutS-related protein involved in mismatch repair [Replication, recombination and repair]

Probab=98.95  E-value=7.6e-10  Score=118.11  Aligned_cols=402  Identities=13%  Similarity=0.042  Sum_probs=216.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhccccCCCCCcccCCCCCccCCCCCCCCCCCCccccccccCCCCCCCCCcceec
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPV   99 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~sts~~~~s~~~~~~~~~~~~~~~~~~e~~~~~~~~~k~~k~k~~~v   99 (497)
                      ++.|.+.++..|+++++..+++...++.+++..++...-.-.+.+.+ .+++......++.....   ..+....+....
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~-~~s~~~~~~~~~~~~~~---~~~~~~~~~~~~   99 (448)
T KOG2401|consen   24 SFSFKLVDLKAASEESSDEVDLGPPELSEMATSTSSADRLQYTIELL-EPSPSSVSFESLRARAS---DENVDRGNQERI   99 (448)
T ss_pred             hhhhhhHhhhhcccccccccccCCCcchhhccccchhhhhccccccc-CCCcccccccccccchh---hhccccHHHHhh
Confidence            56688888999999999999988888888876553222222333322 11111111111111111   011122333444


Q ss_pred             ccccccccccccccccCCCCCCCcccCCCCcCCCCCCCccccccCCC-CCCCCCCccchhHHHHHHHHHhcCccccCHHH
Q 010943          100 SGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEET-KPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDV  178 (497)
Q Consensus       100 s~GtVSsviGK~y~r~~~~~~~~~~~~kp~k~~~k~~~~~~~w~~~~-~~~~~~~~~~~~d~E~FL~~MLG~gf~L~~~v  178 (497)
                      .-....++.|+.+++............+++..+.+.+|....|.++. -++.+.........+++|+.|..+++.-+--.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~n~~  179 (448)
T KOG2401|consen  100 LDRSRNQVAGKLKVSFVEKKLNEEEPQKEINPDGRILPEDPSFEESFRVENGFDPGEAIAFKIEDLPQKQVEGEDVDNCK  179 (448)
T ss_pred             cccccccccccccccccccccCccccccccCCcccccccccchHHHHHHhccCccchhhhcchhhhccccccccccccce
Confidence            55678889999999999888888888888888887777766554333 33333333333344444444444444333333


Q ss_pred             HHHHHHhcCCcHHHHHHHHHcccccccccccccccccccccccccCCcCcchhHhhhhhhccCCCCCcCCCCCCcccccC
Q 010943          179 IREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLK  258 (497)
Q Consensus       179 Ir~VL~~cGyDv~ks~d~LLd~s~~~~~k~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~  258 (497)
                      |. ...+|.+|..++..-.++-+.+....    .....               ++ .-.+  .+........        
T Consensus       180 ~~-~~~~~~~d~~~~~~~~~~~~~~~~~~----~~~~~---------------~~-~~~~--~~~~~~~~~~--------  228 (448)
T KOG2401|consen  180 VK-NQITNSSDSKMATEPGLNDSLKKAYE----NVDSS---------------EE-SVEL--LRKEGFSVDV--------  228 (448)
T ss_pred             ee-ccccccccccccccccccchhhcccc----ccCcc---------------hh-hhhh--hccCCCCccC--------
Confidence            33 33444444444333333333222110    00001               00 0000  0000000000        


Q ss_pred             CCcchhhhHHHHHHHhccCCCCCCcchhhH-HhhhcccccCCccccCCCCCCcccccccccccccccCCcc-cccchHHH
Q 010943          259 HPKDRNELQKEVFAALFSAPKKSDEFPEIM-VKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIA-DNVEEDSF  336 (497)
Q Consensus       259 ~~~~~~~l~~evlesLF~~~e~~e~~p~~~-~~~~~k~~~~~~~v~~p~~D~~~~~~~~~~~~~~~~~~~~-~~~~d~~Y  336 (497)
                      .......-...+.+..+..++.....+.+. -...+++-.-+++.+++.++......  .....-+|...+ .......|
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~d~~~~~~~~~~~~~~~  306 (448)
T KOG2401|consen  229 PSNAEKNSAKRLEELQKSQPEEDKAKKLRDQLYKSKRPAGSGKCLRKRHELSDKPRG--VLQAEDDYNADELSDEFGNKE  306 (448)
T ss_pred             cchhhcccccchhhcchhhhccchhhhHHHhhhhhcccccccchhhhhhhhhhhhhh--hhhcccccchhhhhhhhhhhh
Confidence            000111123334444444444444333222 22344444444566555544433322  112222333322 12333334


Q ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCeeecCCC
Q 010943          337 QHLRTAVMEYRG-TMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDH  415 (497)
Q Consensus       337 ~~~R~~A~eh~~-~Rne~f~kA~~AY~~Gd~a~A~~LSeqGk~~~~karean~~AA~~If~~r~~N~~~~n~~tIDLHGL  415 (497)
                      ......+++..+ .+..++++|+.++..+....|.++.-.+......+......+-+.+....  |.......+.++|+.
T Consensus       307 s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~a~~~~~~--~~~~~r~~~~~~~~~  384 (448)
T KOG2401|consen  307 SIKSEREIDNQRLYKKAAEQKAQPEIEDAINLQASELKPKVSLAVKGSYAVAKLKPATQWKLD--NEEIERRSEVGEHGE  384 (448)
T ss_pred             hhhhhHHhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhchhhhhcccccchhhhcchHHHHHHh--hhhhhcccccccchh
Confidence            444444555555 77889999999999999999999998887766555555444444455555  445555688999999


Q ss_pred             CHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCCceEee
Q 010943          416 GAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEE  474 (497)
Q Consensus       416 hV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi~w~e~  474 (497)
                      +|.++...++              +.|++|+|.||.+...+.+++.+.+...++.+...
T Consensus       385 ~i~~~~~~~~--------------~qv~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~  429 (448)
T KOG2401|consen  385 KISELSRRLK--------------LQVLFGRGIHSRGEARLPRAEKRSYEDPPQGFVEE  429 (448)
T ss_pred             hhHhHhhhcc--------------ccccccccccCccchhhhhhhhhhccCCccceeee
Confidence            9988776543              45889999999998888888888788888765443

>COG2840 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.04  E-value=1.2e-05  Score=77.49  Aligned_cols=79  Identities=18%  Similarity=0.259  Sum_probs=63.3

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCc-cHHHHHHHHHHcCC--ceEee----CCCe
Q 010943          406 NDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGG-RRRRVMKLLEEESI--EWTEE----GNAG  478 (497)
Q Consensus       406 n~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k-~kpAV~klL~kegi--~w~e~----~n~G  478 (497)
                      .+..|||||++++||-..|-..|..+... ....+.||+|+|. |.|+.. ++++|-.+|.+.--  -|++.    ...|
T Consensus        95 ~e~~LDLHG~tq~eAr~~L~~Fi~~a~~~-~~rcv~VihGkG~-s~g~~~vLK~~Vp~WL~qhp~V~a~~~a~~~hGG~G  172 (184)
T COG2840          95 PEARLDLHGLTQEEARQELGAFIARARAE-GLRCVLVIHGKGR-SKGSKPVLKSQVPRWLTQHPDVLAFHQAPRRHGGDG  172 (184)
T ss_pred             cceeeeccCCCHHHHHHHHHHHHHHHHHh-CCcEEEEEeCCCc-CCCCchhHHHHHHHHHHhChHHHhhcccchhcCCce
Confidence            46889999999999999999999987653 4578999999999 998655 67899999998532  24442    2778


Q ss_pred             EEEEEeCC
Q 010943          479 TILIPLDK  486 (497)
Q Consensus       479 vIlI~L~g  486 (497)
                      .|+|.|.-
T Consensus       173 AlyVlL~~  180 (184)
T COG2840         173 ALYVLLRR  180 (184)
T ss_pred             EEEEEEec
Confidence            99998854

>PRK04946 hypothetical protein; Provisional

Probab=97.97  E-value=1.7e-05  Score=76.20  Aligned_cols=76  Identities=14%  Similarity=0.168  Sum_probs=61.5

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCC--ceEee----CCCeE
Q 010943          406 NDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEE----GNAGT  479 (497)
Q Consensus       406 n~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi--~w~e~----~n~Gv  479 (497)
                      ...+|||||+.+.||...|...|..+... +...+.||.|+|.     +.++.+|..+|.+.-.  .|+..    .+.|.
T Consensus        94 ~~~~LDLhG~~~eeA~~~L~~fl~~a~~~-g~r~v~IIHGkG~-----gvLk~~V~~wL~q~~~V~af~~A~~~~GG~GA  167 (181)
T PRK04946         94 PELFLDLHGLTQLQAKQELGALIAACRKE-HVFCACVMHGHGK-----HILKQQTPLWLAQHPDVMAFHQAPKEWGGDAA  167 (181)
T ss_pred             CceEEECCCCCHHHHHHHHHHHHHHHHHc-CCCEEEEEcCCCH-----hHHHHHHHHHHcCCchhheeeccCcccCCceE
Confidence            46899999999999999999999886542 4578999999996     4578899999987654  46542    37899


Q ss_pred             EEEEeCCC
Q 010943          480 ILIPLDKV  487 (497)
Q Consensus       480 IlI~L~gi  487 (497)
                      ++|.|...
T Consensus       168 ~~VlLk~~  175 (181)
T PRK04946        168 LLVLIEIE  175 (181)
T ss_pred             EEEEEecC
Confidence            99998764

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=97.42  E-value=0.00029  Score=80.68  Aligned_cols=73  Identities=22%  Similarity=0.275  Sum_probs=59.4

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCC--ceEee----CCCeEE
Q 010943          407 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEE----GNAGTI  480 (497)
Q Consensus       407 ~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi--~w~e~----~n~GvI  480 (497)
                      ..+|||||+.|.||+..|...|..+... +...++||.|+|.     +.++.+|.+||+++-+  .|+..    .+.|+.
T Consensus       704 ~~~lDL~G~~~eeA~~~l~~fl~~a~~~-g~~~v~IIHGkGt-----G~Lr~~v~~~L~~~~~V~~f~~a~~~~GG~Gat  777 (782)
T PRK00409        704 SLELDLRGMRYEEALERLDKYLDDALLA-GYGEVLIIHGKGT-----GKLRKGVQEFLKKHPSVKSFRDAPPNEGGFGVT  777 (782)
T ss_pred             CceEECCCCCHHHHHHHHHHHHHHHHHc-CCCEEEEEcCCCh-----hHHHHHHHHHHcCCCceeeeeecCcccCCCeEE
Confidence            5799999999999999999999876532 4588999999984     4688899999998865  35542    278999


Q ss_pred             EEEeC
Q 010943          481 LIPLD  485 (497)
Q Consensus       481 lI~L~  485 (497)
                      +|.|.
T Consensus       778 ~V~lk  782 (782)
T PRK00409        778 IVELK  782 (782)
T ss_pred             EEEEC
Confidence            98873

>TIGR01069 mutS2 MutS2 family protein

Probab=97.28  E-value=0.00048  Score=78.88  Aligned_cols=72  Identities=24%  Similarity=0.352  Sum_probs=58.5

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCC--ceEee----CCCeEE
Q 010943          407 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEE----GNAGTI  480 (497)
Q Consensus       407 ~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi--~w~e~----~n~GvI  480 (497)
                      ..+|||||+.+.||+..|...|..+.-. +...++||.|+|.     +.++.+|..||++.-+  .|+..    .+.|+.
T Consensus       693 ~~~ldl~G~~~~eA~~~l~~~ld~a~~~-g~~~v~IIHGkGt-----G~Lr~~v~~~L~~~~~V~~f~~a~~~~GG~G~t  766 (771)
T TIGR01069       693 SLTLDLRGQRSEEALDRLEKFLNDALLA-GYEVVLIIHGKGS-----GKLRKGVQELLKNHPKVKSFRDAPPNDGGSGVT  766 (771)
T ss_pred             CceEECCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEEcCCCh-----hHHHHHHHHHhcCCcceeeecccCcccCCceEE
Confidence            5799999999999999999999876432 4578999999985     4688999999999765  35432    278899


Q ss_pred             EEEe
Q 010943          481 LIPL  484 (497)
Q Consensus       481 lI~L  484 (497)
                      +|.|
T Consensus       767 ~V~l  770 (771)
T TIGR01069       767 IVYL  770 (771)
T ss_pred             EEEE
Confidence            8877

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG2401 consensus Predicted MutS-related protein involved in mismatch repair [Replication, recombination and repair]

Probab=96.24  E-value=0.0094  Score=64.28  Aligned_cols=356  Identities=13%  Similarity=0.038  Sum_probs=212.9

Q ss_pred             cCHHHHHHHHHHhCCCchhhhhhhccccCCCCCcccCCCCCcc------CCCCCCCCCCCCccccccccCCCCCCCCCcc
Q 010943           23 FTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEA------RGKESSKSSNSNISEKSFYANGKSKPPKTKW   96 (497)
Q Consensus        23 fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~sts~~~~s~~~~------~~~~~~~~~~~~~~e~~~~~~~~~k~~k~k~   96 (497)
                      .++.-.+..|...+.+.+.|.+.+...-+...+-.++....++      .+....+.++..+   +.. ....+..+   
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~s~~~~---~~~-~~~~~~~~---   88 (448)
T KOG2401|consen   16 LTLSLAAFSFSFKLVDLKAASEESSDEVDLGPPELSEMATSTSSADRLQYTIELLEPSPSSV---SFE-SLRARASD---   88 (448)
T ss_pred             chhccchhhhhhhhHhhhhcccccccccccCCCcchhhccccchhhhhcccccccCCCcccc---ccc-ccccchhh---
Confidence            4566678899999999999999998887776555554333322      1011111111111   000 00011100   


Q ss_pred             eecccccccccccccccccCCCCCCCcccCCCCcCCCCCCCccccccCCCCCCCCCCccchhHHHHHHHHHhcCccccCH
Q 010943           97 HPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSR  176 (497)
Q Consensus        97 ~~vs~GtVSsviGK~y~r~~~~~~~~~~~~kp~k~~~k~~~~~~~w~~~~~~~~~~~~~~~~d~E~FL~~MLG~gf~L~~  176 (497)
                      ..+-.|+ --.+++.+..+....-.  ....+.+++. ++|+.. |.     -..+......-.++++-.+++......+
T Consensus        89 ~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~-~~-----~~~~~~~~~~~~~e~~~~~~~f~~~~~~  158 (448)
T KOG2401|consen   89 ENVDRGN-QERILDRSRNQVAGKLK--VSFVEKKLNE-EEPQKE-IN-----PDGRILPEDPSFEESFRVENGFDPGEAI  158 (448)
T ss_pred             hccccHH-HHhhccccccccccccc--ccccccccCc-cccccc-cC-----CcccccccccchHHHHHHhccCccchhh
Confidence            0011121 12345555444432211  1223333331 122222 11     1122333466778888889999999999


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHcccccccccccccccccccccccccCCcCcchhHhhhhhhccCCCCCcCCCCCCcccc
Q 010943          177 DVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGEL  256 (497)
Q Consensus       177 ~vIr~VL~~cGyDv~ks~d~LLd~s~~~~~k~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  256 (497)
                      ..+.+.|.+|.+...-+.....+...+ ..-                                    +.+.......+..
T Consensus       159 ~~~~~~~~~~~~~~~~~~n~~~~~~~~-~~~------------------------------------d~~~~~~~~~~~~  201 (448)
T KOG2401|consen  159 AFKIEDLPQKQVEGEDVDNCKVKNQIT-NSS------------------------------------DSKMATEPGLNDS  201 (448)
T ss_pred             hcchhhhccccccccccccceeecccc-ccc------------------------------------cccccccccccch
Confidence            999999999998776555544441111 000                                    0000000000111


Q ss_pred             cCCCcchhhhHHHHHHHhccCCCCCCcchhhHHhhhcccccCCccccCCCCCCcccccccccccccccCCcccccchHHH
Q 010943          257 LKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNIADNVEEDSF  336 (497)
Q Consensus       257 ~~~~~~~~~l~~evlesLF~~~e~~e~~p~~~~~~~~k~~~~~~~v~~p~~D~~~~~~~~~~~~~~~~~~~~~~~~d~~Y  336 (497)
                      ......-..++.+.+..+|+.                     +.++.     .+....          .+  ......+|
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~-----~~~~~~----------~~--~~~~~~~~  243 (448)
T KOG2401|consen  202 LKKAYENVDSSEESVELLRKE---------------------GFSVD-----VPSNAE----------KN--SAKRLEEL  243 (448)
T ss_pred             hhccccccCcchhhhhhhccC---------------------CCCcc-----Ccchhh----------cc--cccchhhc
Confidence            111111123344455555544                     12221     111111          11  23456778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCeeecCCCC
Q 010943          337 QHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHG  416 (497)
Q Consensus       337 ~~~R~~A~eh~~~Rne~f~kA~~AY~~Gd~a~A~~LSeqGk~~~~karean~~AA~~If~~r~~N~~~~n~~tIDLHGLh  416 (497)
                      +..+.........+...|..+.-|+..+....+..++.+.+......+..+.++....|.-.  +.. .....+|+|+++
T Consensus       244 ~~~~~~~~~~~k~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~--~s~-~~~~~~~~~~~~  320 (448)
T KOG2401|consen  244 QKSQPEEDKAKKLRDQLYKSKRPAGSGKCLRKRHELSDKPRGVLQAEDDYNADELSDEFGNK--ESI-KSEREIDNQRLY  320 (448)
T ss_pred             chhhhccchhhhHHHhhhhhcccccccchhhhhhhhhhhhhhhhhcccccchhhhhhhhhhh--hhh-hhhHHhhhhhHH
Confidence            88888888888999999999999999999999999999999999999999999999988877  533 346889999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCC-CccHHHHHHHHHHcCCceEee
Q 010943          417 AKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEE  474 (497)
Q Consensus       417 V~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~kegi~w~e~  474 (497)
                      ++.|...+...+...... ...++.++.+.++|.... .+++|++...+..+.+.-...
T Consensus       321 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~v~~~~~a~~~~~~~~~~~r~~~  378 (448)
T KOG2401|consen  321 KKAAEQKAQPEIEDAINL-QASELKPKVSLAVKGSYAVAKLKPATQWKLDNEEIERRSE  378 (448)
T ss_pred             HHHHHhhhhhhhhhhhhh-hhhhhchhhhhcccccchhhhcchHHHHHHhhhhhhcccc
Confidence            999999998887765443 347899999999999754 568899999999988764443

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=95.97  E-value=0.015  Score=42.81  Aligned_cols=40  Identities=30%  Similarity=0.471  Sum_probs=33.3

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 010943          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (497)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (497)
                      ++-+.|..|+-   +++.++|+.||.+|++||+.+++.||+++
T Consensus         3 ~~v~~L~~mFP---~~~~~~I~~~L~~~~~~ve~ai~~LL~~~   42 (42)
T PF02845_consen    3 EMVQQLQEMFP---DLDREVIEAVLQANNGDVEAAIDALLEMS   42 (42)
T ss_dssp             HHHHHHHHHSS---SS-HHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            44466777765   69999999999999999999999999874

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=94.90  E-value=0.069  Score=39.41  Aligned_cols=40  Identities=23%  Similarity=0.382  Sum_probs=33.4

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 010943          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (497)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (497)
                      ++-+.|..|+-   +|+..+|+.+|-.|++||+.+++.||..+
T Consensus         4 ~~v~~L~~mFP---~l~~~~I~~~L~~~~g~ve~~i~~LL~~~   43 (43)
T smart00546        4 EALHDLKDMFP---NLDEEVIKAVLEANNGNVEATINNLLEGS   43 (43)
T ss_pred             HHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            45556666632   79999999999999999999999999764

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>cd00194 UBA Ubiquitin Associated domain

Probab=94.83  E-value=0.058  Score=38.40  Aligned_cols=35  Identities=26%  Similarity=0.462  Sum_probs=28.6

Q ss_pred             HHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 010943          163 FLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (497)
Q Consensus       163 FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (497)
                      -+..|..-||.  +..++++|..|++|+++|++.|++
T Consensus         4 ~v~~L~~mGf~--~~~~~~AL~~~~~d~~~A~~~L~~   38 (38)
T cd00194           4 KLEQLLEMGFS--REEARKALRATNNNVERAVEWLLE   38 (38)
T ss_pred             HHHHHHHcCCC--HHHHHHHHHHhCCCHHHHHHHHhC
Confidence            34445555766  999999999999999999999974

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=89.88  E-value=0.34  Score=34.72  Aligned_cols=31  Identities=32%  Similarity=0.665  Sum_probs=25.3

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHH
Q 010943          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKL  197 (497)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~L  197 (497)
                      +=|..|   ||  +...+++.|-.|++||++|++.|
T Consensus         7 ~~L~~m---Gf--~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    7 QQLMEM---GF--SREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             HHHHHH---TS---HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             HHHHHc---CC--CHHHHHHHHHHcCCCHHHHHHhC
Confidence            447777   55  56699999999999999999976

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>smart00165 UBA Ubiquitin associated domain

Probab=89.70  E-value=0.4  Score=33.87  Aligned_cols=25  Identities=16%  Similarity=0.311  Sum_probs=22.3

Q ss_pred             cCHHHHHHHHHhcCCcHHHHHHHHH
Q 010943          174 LSRDVIREVLDSCGYDMQKSMSKLI  198 (497)
Q Consensus       174 L~~~vIr~VL~~cGyDv~ks~d~LL  198 (497)
                      .+...++.+|-.|++|+++|++-|+
T Consensus        13 f~~~~a~~aL~~~~~d~~~A~~~L~   37 (37)
T smart00165       13 FSREEALKALRAANGNVERAAEYLL   37 (37)
T ss_pred             CCHHHHHHHHHHhCCCHHHHHHHHC
Confidence            4566999999999999999999885

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins

Probab=83.62  E-value=0.67  Score=38.80  Aligned_cols=39  Identities=21%  Similarity=0.344  Sum_probs=31.1

Q ss_pred             HHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 010943          165 FKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (497)
Q Consensus       165 ~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (497)
                      -.-||+... +-..|+++|=.|.|||+||++.||.-....
T Consensus        36 r~~Lg~~~~-~e~~i~eal~~~~fDvekAl~~Ll~~~~~~   74 (79)
T PF08938_consen   36 REVLGDYVP-PEEQIKEALWHYYFDVEKALDYLLSKFKKK   74 (79)
T ss_dssp             HHHCCCCC---CCHHHHHHHHTTT-CCHHHHHHHHCCHSS
T ss_pred             HHHHcccCC-CHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            456899887 889999999999999999999999876553

; PDB: 1UFZ_A 3IZQ_1.

>cd00194 UBA Ubiquitin Associated domain

Probab=83.46  E-value=1.1  Score=31.81  Aligned_cols=29  Identities=28%  Similarity=0.195  Sum_probs=26.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhcc
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (497)
                      .-+|+-+++..|+...++|++.|++.|.+
T Consensus        10 ~mGf~~~~~~~AL~~~~~d~~~A~~~L~~   38 (38)
T cd00194          10 EMGFSREEARKALRATNNNVERAVEWLLE   38 (38)
T ss_pred             HcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            45699999999999999999999999853

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []

Probab=81.53  E-value=1.5  Score=32.72  Aligned_cols=26  Identities=19%  Similarity=0.524  Sum_probs=23.2

Q ss_pred             ccCHHHHHHHHHhcCCcHHHHHHHHH
Q 010943          173 QLSRDVIREVLDSCGYDMQKSMSKLI  198 (497)
Q Consensus       173 ~L~~~vIr~VL~~cGyDv~ks~d~LL  198 (497)
                      +-.+.++.-||..|+.||=+|||.+|
T Consensus        14 ~~kr~~Le~iL~~C~GDvv~AIE~~l   39 (39)
T PF03474_consen   14 HQKRSVLELILQRCNGDVVQAIEQFL   39 (39)
T ss_pred             CCChHHHHHHHHHcCCcHHHHHHHhC
Confidence            45688999999999999999999875

DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=80.37  E-value=1.6  Score=31.24  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=22.7

Q ss_pred             ccCHHHHHHHHHHhCCCchhhhhhh
Q 010943           22 VFTMQEIALACRNAGRNPDLAGESL   46 (497)
Q Consensus        22 ~fSl~~ia~Ay~~A~~d~~~A~eiL   46 (497)
                      +|+-+++-.|+...++|++.|.++|
T Consensus        13 Gf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen   13 GFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             TS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            5999999999999999999999987

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

---

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	497
2vkc_A	135	NEDD4-binding protein 2; human BCL3 binding protei	2e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08

>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 = 55.6 bits (133), Expect = 3e-08
 Identities = 65/392 (16%), Positives = 111/392 (28%), Gaps = 106/392 (27%)

Query: 104 VSSFLGKDY--------VKPAQPTNGTGLASK---PLKLDPKEFPMSALWGEETKPK-QS 151
           V   L  +Y         +  QP+  T +  +    L  D + F    +   +   K + 
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142

Query: 152 KGDHLQKEMEDFLFKLLGEGFQ-LSRDVIREVLDSCGYDMQKSMSK----LIDHSAETLG 206
               L+      +  +LG G   ++ DV         Y +Q  M      L       L 
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLS------YKVQCKMDFKIFWL------NLK 190

Query: 207 EKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGE---LLKHPKDR 263
                   S E  +++       Q +      +      K   ++ + E   LLK     
Sbjct: 191 NC-----NSPETVLEMLQKLL-YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244

Query: 264 NEL--------------------------QKEVFAALFSAPKKSDEFPEIMVK--TKRRS 295
           N L                           K+V   L SA   +    +      T    
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFL-SAATTTHISLDHHSMTLTPDEV 303

Query: 296 KAL-GKVVSGPPEDLVPEYKANVVH---------LQQDNQNIADNVE-----------ED 334
           K+L  K +   P+DL  E      +           +D     DN +           E 
Sbjct: 304 KSLLLKYLDCRPQDLPRE--VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 335 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKI 394
           S   L  A  EYR   K + + ++  F    H+    LL     +++  +        K+
Sbjct: 362 SLNVLEPA--EYR---KMFDRLSV--FPPSAHI-PTILLS--LIWFDVIKSDVMVVVNKL 411

Query: 395 FETSGRNRDTKN------DLLLDLHDHGAKEA 420
            + S   +  K        + L+L      E 
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEY 443

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	497
2vkc_A	135	NEDD4-binding protein 2; human BCL3 binding protei	99.91
3fau_A	82	NEDD4-binding protein 2; SMR, small-MUTS related d	99.66
2d9i_A	96	NEDD4-binding protein 2; SMR domain, N4BP2, BCL-3	99.64
3qd7_X	137	Uncharacterized protein YDAL; alpha/beta/alpha fol	98.98
2zqe_A	83	MUTS2 protein; alpha/beta, ATP-binding, DNA-bindin	98.72
2dhy_A	67	CUE domain-containing protein 1; structural genomi	97.11
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	97.06
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	95.13
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	95.01
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	92.16
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	90.89
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	90.18
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	88.39
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	87.7
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	87.51
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	87.01
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	86.93
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	85.72
1ufz_A	83	Hypothetical protein BAB28515; HBS1-like domain, s	85.41
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	82.91
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	82.49
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	82.43
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	82.3
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	81.82
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	81.7
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	80.24
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	80.14

>3fau_A NEDD4-binding protein 2; SMR, small-MUTS related domain, nicking endonuclease, alternative splicing, ATP-binding, coiled coil, cytoplasm, hydrolase; 1.90A {Homo sapiens} SCOP: d.68.8.1

Probab=99.66  E-value=1e-16  Score=132.14  Aligned_cols=76  Identities=25%  Similarity=0.279  Sum_probs=58.9

Q ss_pred             eeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CccHHHHHHHHHHcCCceEeeCCCeEEEEE
Q 010943          409 LLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTILIP  483 (497)
Q Consensus       409 tIDLHGLhV~EAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~kegi~w~e~~n~GvIlI~  483 (497)
                      +|||||++|+||+++|++.|..+..    ..+...++||||+|+||.++ +.++++|.++|.+++|+|.+. |+|+|+|.
T Consensus         2 ~lDLHGl~v~eA~~~l~~~l~~~~~~~~~~~g~~~v~II~GkG~hS~~g~~~Lk~~V~~~L~~~~~~~~e~-n~G~l~V~   80 (82)
T 3fau_A            2 SLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEI-KPGCLKVM   80 (82)
T ss_dssp             CEECTTSCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCC---------CHHHHHHHHHHHTTCCEEEE-ETTEEEEE
T ss_pred             eEECCCCcHHHHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCCCCcchHHHHHHHHHHhCCCceeeC-CCEEEEEE
Confidence            6999999999999999999987642    02347899999999999976 468889999999999999877 99999998


Q ss_pred             eC
Q 010943          484 LD  485 (497)
Q Consensus       484 L~  485 (497)
                      |+
T Consensus        81 l~   82 (82)
T 3fau_A           81 LK   82 (82)
T ss_dssp             C-
T ss_pred             eC
Confidence            84

>2d9i_A NEDD4-binding protein 2; SMR domain, N4BP2, BCL-3 binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.68.8.1

Probab=99.64  E-value=4e-16  Score=132.08  Aligned_cols=82  Identities=23%  Similarity=0.251  Sum_probs=70.8

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CccHHHHHHHHHHcCCceEeeCCCeEE
Q 010943          406 NDLLLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTI  480 (497)
Q Consensus       406 n~~tIDLHGLhV~EAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~kegi~w~e~~n~GvI  480 (497)
                      .+.+|||||++|+||++.|++.|..+..    ..+...++||||+|+||.++ +.++++|.++|++.+++|.+. +.|++
T Consensus         7 ~~~~lDLHGl~v~eA~~~L~~~L~~~~~~~~~~~g~~~v~IIhGkG~hS~~g~~~Lk~~V~~~L~~~~~~~~eg-g~Ga~   85 (96)
T 2d9i_A            7 GQNVLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEI-KPGCL   85 (96)
T ss_dssp             SCCEEECTTSCHHHHHHHHHHHHHHHHHHHHHTTCCSEEEEECCCSGGGTTCTTCHHHHHHHHHHHTTCCEECC-STTCE
T ss_pred             CCCeEECCCCCHHHHHHHHHHHHHHHHHHHHhhCCCeEEEEEECcCCCCCCCcchHHHHHHHHHhhCCCccccC-CCcEE
Confidence            4789999999999999999999986531    23457899999999999977 568889999999999999766 99999


Q ss_pred             EEEeCCCC
Q 010943          481 LIPLDKVN  488 (497)
Q Consensus       481 lI~L~gi~  488 (497)
                      +|.|....
T Consensus        86 ~V~L~~~~   93 (96)
T 2d9i_A           86 KVMLKSGP   93 (96)
T ss_dssp             EEECCCCC
T ss_pred             EEEEccCC
Confidence            99998643

>3qd7_X Uncharacterized protein YDAL; alpha/beta/alpha fold, endonuclease, hydrolase; 2.30A {Escherichia coli}

Probab=98.98  E-value=5.9e-10  Score=100.81  Aligned_cols=83  Identities=16%  Similarity=0.219  Sum_probs=67.2

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCC-ccHHHHHHHHHHcCC--ceEee----CCCe
Q 010943          406 NDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKG-GRRRRVMKLLEEESI--EWTEE----GNAG  478 (497)
Q Consensus       406 n~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~-k~kpAV~klL~kegi--~w~e~----~n~G  478 (497)
                      ...+|||||++|+||+..|...|..+... +...++||+|+|.||.++. .++++|..+|.+...  .|+..    .+.|
T Consensus        46 ~~~~LDLHG~~~~EA~~~L~~fL~~a~~~-g~r~V~IIHGKG~gs~~~~~vLk~~V~~wL~~~~~V~~f~~a~~~~GG~G  124 (137)
T 3qd7_X           46 QQASLNLLRQPVEECRKMVFSFIQQALAD-GLRNVLIIHGKGRDDKSHANIVRSYVARWLTEFDDVQAYCTALPHHGGSG  124 (137)
T ss_dssp             GGGEEECTTCCHHHHHHHHHHHHHHHHHT-TCSEEEEECCCCSSTTSHHHHHHHHHHHHHHTSTTEEEEEECCGGGTGGG
T ss_pred             CCeEEECCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEEECCCCCCCCchHHHHHHHHHHHhcCCceeEEeecCccCCCCE
Confidence            36899999999999999999999876543 3478999999999998765 578899999999875  46542    2899


Q ss_pred             EEEEEeCCCCC
Q 010943          479 TILIPLDKVNP  489 (497)
Q Consensus       479 vIlI~L~gi~p  489 (497)
                      +++|.|.....
T Consensus       125 at~V~Lr~~~~  135 (137)
T 3qd7_X          125 ACYVALRKTAQ  135 (137)
T ss_dssp             EEEEEECC---
T ss_pred             EEEEEEEchhh
Confidence            99999976543

>2zqe_A MUTS2 protein; alpha/beta, ATP-binding, DNA-binding, nucleotide-binding, DN protein; 1.70A {Thermus thermophilus}

Probab=98.72  E-value=3.5e-08  Score=81.91  Aligned_cols=73  Identities=15%  Similarity=0.248  Sum_probs=60.4

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCccHHHHHHHHHHcCC--ceEeeC----CCeEE
Q 010943          407 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEEG----NAGTI  480 (497)
Q Consensus       407 ~~tIDLHGLhV~EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~kegi--~w~e~~----n~GvI  480 (497)
                      ..+|||||+.++||...|...|...... +...++||+|+|.     +.++.+|.++|.+...  .|+...    +.|++
T Consensus         4 ~~~lDLhG~~~~eA~~~l~~fl~~a~~~-g~~~v~IIHGkG~-----GvLr~~V~~~L~~~~~V~~f~~a~~~~GG~Gat   77 (83)
T 2zqe_A            4 VKEVDLRGLTVAEALLEVDQALEEARAL-GLSTLRLLHGKGT-----GALRQAIREALRRDKRVESFADAPPGEGGHGVT   77 (83)
T ss_dssp             CCEEECTTCCHHHHHHHHHHHHHHHHHT-TCSEEEEECCSTT-----SHHHHHHHHHHHHCTTEEEEEECCTTTTGGGEE
T ss_pred             ccEEECCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEEECCCc-----hHHHHHHHHHHhcCCceeEEEEcCcccCCCEEE
Confidence            5789999999999999999999876532 3478999999997     4688899999999874  466532    57999


Q ss_pred             EEEeC
Q 010943          481 LIPLD  485 (497)
Q Consensus       481 lI~L~  485 (497)
                      +|.|.
T Consensus        78 ~V~Lk   82 (83)
T 2zqe_A           78 VVALR   82 (83)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99885

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.11  E-value=0.00081  Score=54.05  Aligned_cols=47  Identities=15%  Similarity=0.200  Sum_probs=40.9

Q ss_pred             cchhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 010943          155 HLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (497)
Q Consensus       155 ~~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (497)
                      ...+++.+.|-.|+-   +|+..||+.||..||+||+.+++.||.++.-.
T Consensus        16 ~~~~~~v~~L~~MFP---~lD~~vI~~vL~a~~G~vd~aId~LL~ms~~~   62 (67)
T 2dhy_A           16 LEFNQAMDDFKTMFP---NMDYDIIECVLRANSGAVDATIDQLLQMNLES   62 (67)
T ss_dssp             CCSHHHHHHHHHHCS---SSCHHHHHHHHHHHTSCHHHHHHHHHHHHHCS
T ss_pred             CCHHHHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHhcCCCC
Confidence            456777888999933   89999999999999999999999999998653

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=97.06  E-value=0.001  Score=52.16  Aligned_cols=48  Identities=17%  Similarity=0.259  Sum_probs=40.1

Q ss_pred             cchhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccccc
Q 010943          155 HLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETL  205 (497)
Q Consensus       155 ~~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~~  205 (497)
                      ...++.-+.|-.|+-   .++..+|+.||..|++||+.+++.||.++....
T Consensus         7 ~~~ee~l~~L~emFP---~ld~~~I~~vL~a~~gdvd~aI~~LL~m~~~~~   54 (59)
T 1wgl_A            7 GCSEEDLKAIQDMFP---NMDQEVIRSVLEAQRGNKDAAINSLLQMGEEPS   54 (59)
T ss_dssp             SSCHHHHHHHHHHCS---SSCHHHHHHHHTTTTTCHHHHHHHHHHSSCCCC
T ss_pred             CCCHHHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHcCcCCCC
Confidence            344556666778832   799999999999999999999999999998764

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=95.13  E-value=0.032  Score=42.25  Aligned_cols=42  Identities=12%  Similarity=0.232  Sum_probs=36.4

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      ++=.++|..|+=   .++..+||-||..|++|++.|++.||.+..
T Consensus         5 e~~v~~L~EMFP---~~~~~~ik~~L~~~~Gd~d~Ai~~LL~~~~   46 (49)
T 1otr_A            5 ESKLSILMDMFP---AISKSKLQVHLLENNNDLDLTIGLLLKEND   46 (49)
T ss_dssp             HHHHHHHHHHCS---SSCHHHHHHHHHHTTTCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Confidence            556678888854   699999999999999999999999999843

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A

Probab=95.01  E-value=0.0045  Score=47.86  Aligned_cols=43  Identities=14%  Similarity=0.237  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      ++++=+=|-.|+-   +||.+||++||-.++|++..++|.||.||.
T Consensus        12 ~~~~~~~L~~MFP---~lD~evI~~Vl~a~~G~~~~~IdaLLqms~   54 (54)
T 1p3q_Q           12 RKDTLNTLQNMFP---DMDPSLIEDVCIAAASRIGPCVDALLSLSE   54 (54)
T ss_dssp             HHHHHHHHHHHST---TSCHHHHHHHHHHSCC--CGGGC-------
T ss_pred             HHHHHHHHHHHcc---cCCHHHHHHHHHHcCCCHHHHHHHHHhhcC
Confidence            3444445677765   699999999999999999999999999873

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=92.16  E-value=0.31  Score=39.54  Aligned_cols=36  Identities=22%  Similarity=0.401  Sum_probs=29.8

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      +=|..|   ||  +++.++..|..|++|+++|++.||+-..
T Consensus        34 ~~L~eM---GF--~r~~a~~AL~~~~~nve~Ave~Ll~~~~   69 (73)
T 1vg5_A           34 QKLVAM---GF--DRTQVEVALAAADDDLTVAVEILMSQSG   69 (73)
T ss_dssp             HHHHTT---TC--CHHHHHHHHHHHTSCHHHHHHHHHTCSC
T ss_pred             HHHHHc---CC--CHHHHHHHHHHhCCCHHHHHHHHHHCCC
Confidence            345555   55  8999999999999999999999997543

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=90.89  E-value=0.31  Score=36.27  Aligned_cols=38  Identities=16%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             HHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 010943          160 MEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (497)
Q Consensus       160 ~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (497)
                      -|+-|..+..=||  ++..++..|..|++|+++|++.|+.
T Consensus         8 ~~~~i~~L~~MGF--~~~~a~~AL~~~~~n~e~A~e~L~~   45 (49)
T 1ify_A            8 YETMLTEIMSMGY--ERERVVAALRASYNNPHRAVEYLLT   45 (49)
T ss_dssp             HHHHHHHHHHTTC--CHHHHHHHHHTTTSCSHHHHHHHHH
T ss_pred             CHHHHHHHHHcCC--CHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            3444444444477  9999999999999999999999987

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=90.18  E-value=0.46  Score=34.00  Aligned_cols=32  Identities=28%  Similarity=0.673  Sum_probs=26.6

Q ss_pred             HhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcc
Q 010943          167 LLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDH  200 (497)
Q Consensus       167 MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~  200 (497)
                      +..=||  +++.++..|..|++|++.|++.|++.
T Consensus        11 L~~MGF--~~~~a~~AL~~~~~n~e~A~~~L~~~   42 (43)
T 2g3q_A           11 LSGMGF--TEEEAHNALEKCNWDLEAATNFLLDS   42 (43)
T ss_dssp             HHTTTS--CHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             HHHcCC--CHHHHHHHHHHhCcCHHHHHHHHHcC
Confidence            333366  68899999999999999999999863

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=88.39  E-value=0.54  Score=32.70  Aligned_cols=32  Identities=25%  Similarity=0.327  Sum_probs=26.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHH
Q 010943          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLI  198 (497)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LL  198 (497)
                      +-|..|   ||  +...++..|..|++|++.|++.|+
T Consensus         9 ~~L~~m---Gf--~~~~a~~AL~~~~~n~e~A~~~L~   40 (40)
T 1z96_A            9 AQLVSM---GF--DPLEAAQALDAANGDLDVAASFLL   40 (40)
T ss_dssp             HHHHHT---TC--CHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             HHHHHc---CC--CHHHHHHHHHHcCCCHHHHHHHHC
Confidence            335666   56  678889999999999999999885

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=87.70  E-value=0.36  Score=36.41  Aligned_cols=31  Identities=10%  Similarity=0.130  Sum_probs=28.0

Q ss_pred             cCHHHHHHHHHHhCCCchhhhhhhccccCCC
Q 010943           23 FTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (497)
Q Consensus        23 fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (497)
                      ++..+|.+++..|+||+|.|.++|..+...+
T Consensus        18 ~~~~~ik~~L~~~~Gd~d~Ai~~LL~~~~~~   48 (49)
T 1otr_A           18 ISKSKLQVHLLENNNDLDLTIGLLLKENDDK   48 (49)
T ss_dssp             SCHHHHHHHHHHTTTCSHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHhccccc
Confidence            6889999999999999999999999986543

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=87.51  E-value=1.5  Score=36.51  Aligned_cols=41  Identities=24%  Similarity=0.325  Sum_probs=34.5

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 010943          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (497)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (497)
                      ++.=+=|..|   ||  ++..++..|.+|+.|+++|++.|+...+.
T Consensus        30 ee~I~~Lv~M---GF--~~~~A~~AL~~t~gdve~A~e~L~sh~~~   70 (83)
T 1veg_A           30 QESINQLVYM---GF--DTVVAEAALRVFGGNVQLAAQTLAHHGGS   70 (83)
T ss_dssp             HHHHHHHHHH---SC--CHHHHHHHHHHTTTCHHHHHHHHHHHTSS
T ss_pred             HHHHHHHHHc---CC--CHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence            4444677788   55  89999999999999999999999987664

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=87.01  E-value=0.89  Score=35.67  Aligned_cols=36  Identities=19%  Similarity=0.486  Sum_probs=29.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      +-|..|   ||  ++..++..|..|++|++.|++.||.-..
T Consensus        14 ~~L~~M---GF--~~~~a~~AL~~~~~nve~A~e~L~~~~~   49 (63)
T 1wji_A           14 KHITEM---GF--SKEASRQALMDNGNNLEAALNVLLTSNK   49 (63)
T ss_dssp             HHHHTT---TC--CHHHHHHHHHHTTSCHHHHHHHHHHHSS
T ss_pred             HHHHHc---CC--CHHHHHHHHHHhCCCHHHHHHHHHHCCC
Confidence            345555   66  7888899999999999999999998654

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=86.93  E-value=0.85  Score=39.50  Aligned_cols=41  Identities=15%  Similarity=0.340  Sum_probs=33.9

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      .++| +.|.-|-    ..+.+.+|.+|-.|++|+.+|++.||+--.
T Consensus        40 eekV-k~L~Emt----G~seeeAr~AL~~~ngDl~~AI~~Lleg~~   80 (104)
T 1wj7_A           40 EEKV-KQLIDIT----GKNQDECVIALHDCNGDVNRAINVLLEGNP   80 (104)
T ss_dssp             HHHH-HHHHHHT----CCCHHHHHHHHHHHTSCHHHHHHHHHTCSS
T ss_pred             HHHH-HHHHHhh----CCCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence            3444 6777774    488999999999999999999999997653

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=85.72  E-value=0.5  Score=36.36  Aligned_cols=34  Identities=21%  Similarity=0.173  Sum_probs=30.3

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhccccCCC
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (497)
                      +-+|+-+++-.|...|++|++.|+.||......+
T Consensus        18 ~lGF~r~~ai~AL~~a~nnve~Aa~iL~ef~~~~   51 (53)
T 2d9s_A           18 SQGYSYQDIQKALVIAHNNIEMAKNILREFSGPS   51 (53)
T ss_dssp             HHTCCHHHHHHHHHHTTTCHHHHHHHHHHHTSCS
T ss_pred             HcCCCHHHHHHHHHHhcCCHHHHHHHHHHhcccC
Confidence            6679999999999999999999999998776543

>1ufz_A Hypothetical protein BAB28515; HBS1-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, translatio; NMR {Mus musculus} SCOP: a.5.9.1

Probab=85.41  E-value=0.88  Score=37.96  Aligned_cols=37  Identities=22%  Similarity=0.536  Sum_probs=30.4

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      +-..|||  -++...++++.=.|.||++||||.+|+.+.
T Consensus        41 iR~VlGd--sV~e~~Lv~ailk~dfD~ekALd~vL~~~~   77 (83)
T 1ufz_A           41 MREVLGD--AVPDDILTEAILKHKFDVQKALSVVLEQDG   77 (83)
T ss_dssp             HHHHTTT--TSCHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHcc--cCCHHHHHHHHHHhcCCHHHHHHHHHhccc
Confidence            3456888  577777788888899999999999998765

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=82.91  E-value=1.8  Score=33.85  Aligned_cols=36  Identities=17%  Similarity=0.138  Sum_probs=31.1

Q ss_pred             ccCCccCHHHHHHHHHHhCCCchhhhhhhccccCCC
Q 010943           18 LNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (497)
Q Consensus        18 L~gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (497)
                      |..-+|+-+++..|++..++|++.|.+.|..-..+.
T Consensus        16 L~~MGF~~~~a~~AL~~~~~nve~A~e~L~~~~~~~   51 (63)
T 1wji_A           16 ITEMGFSKEASRQALMDNGNNLEAALNVLLTSNKQK   51 (63)
T ss_dssp             HHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHSSCC
T ss_pred             HHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCc
Confidence            336779999999999999999999999999776544

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=82.49  E-value=1.1  Score=34.59  Aligned_cols=33  Identities=21%  Similarity=0.467  Sum_probs=27.8

Q ss_pred             ccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 010943          171 GFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (497)
Q Consensus       171 gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (497)
                      || -|...-..+|.++||||+++++.||.+..-+
T Consensus        20 GF-~D~~~N~~aL~~~~gnv~~aI~~Ll~~~~~~   52 (54)
T 2cp8_A           20 GF-CDRQLNLRLLKKHNYNILQVVTELLQLSGPS   52 (54)
T ss_dssp             TC-CCHHHHHHHHTTTTTCHHHHHHHHHHHSSSC
T ss_pred             CC-CcHHHHHHHHHHcCCCHHHHHHHHHhccCCC
Confidence            45 3677888999999999999999999887554

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=82.43  E-value=0.78  Score=35.17  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=27.9

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhccc
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCDK   49 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~   49 (497)
                      +-+||-+++-.|...|++|++.|+.||...
T Consensus        20 ~mGFsr~~ai~AL~~a~nnve~AaniLlef   49 (52)
T 2ooa_A           20 GEGYAFEEVKRALEIAQNNVEVARSILREF   49 (52)
T ss_dssp             HTTCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HcCCCHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            778999999999999999999999999764

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=82.30  E-value=1.2  Score=36.19  Aligned_cols=44  Identities=14%  Similarity=0.332  Sum_probs=33.9

Q ss_pred             chhHHHHHHHHHhcCcc-ccCHHHHHHHHHhcCCcHHHHHHHHHcc
Q 010943          156 LQKEMEDFLFKLLGEGF-QLSRDVIREVLDSCGYDMQKSMSKLIDH  200 (497)
Q Consensus       156 ~~~d~E~FL~~MLG~gf-~L~~~vIr~VL~~cGyDv~ks~d~LLd~  200 (497)
                      ...++++= .+++-|=| .|+.+.|+.+|..|++|||..+..||+=
T Consensus         9 ~~~~l~s~-I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~LLE~   53 (71)
T 2di0_A            9 CGVELDSL-ISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILEE   53 (71)
T ss_dssp             SSHHHHHH-HHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHTT
T ss_pred             cHHHHHHH-HHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHHHcc
Confidence            34444432 34445556 7999999999999999999999999984

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=81.82  E-value=1.4  Score=35.69  Aligned_cols=37  Identities=19%  Similarity=0.181  Sum_probs=31.5

Q ss_pred             hccCCccCHHHHHHHHHHhCCCchhhhhhhccccCCC
Q 010943           17 ALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (497)
Q Consensus        17 ~L~gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (497)
                      -|..=+|+-+++..|++.+++|++.|.++|.+-+++.
T Consensus        35 ~L~eMGF~r~~a~~AL~~~~~nve~Ave~Ll~~~~p~   71 (73)
T 1vg5_A           35 KLVAMGFDRTQVEVALAAADDDLTVAVEILMSQSGPS   71 (73)
T ss_dssp             HHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTCSCSS
T ss_pred             HHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCCCCC
Confidence            3335569999999999999999999999999876653

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=81.70  E-value=2.9  Score=31.41  Aligned_cols=42  Identities=21%  Similarity=0.352  Sum_probs=31.4

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 010943          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (497)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (497)
                      +.++-|-.+..=||. ++..++.+|..|+.|+++|++.|+...
T Consensus        10 ~~~~~l~~L~~MGF~-~~~~~~~AL~~t~gnve~Ave~L~~~~   51 (53)
T 2knz_A           10 RFQQQLEQLNSMGFI-NREANLQALIATGGDINAAIERLLGSQ   51 (53)
T ss_dssp             HHHHHHHHHHTTTCC-CHHHHHHHHHHHTSCHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCCC-CHHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            344445445444552 788999999999999999999999753

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=80.24  E-value=1.1  Score=31.08  Aligned_cols=28  Identities=29%  Similarity=0.164  Sum_probs=25.1

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhc
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLC   47 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~   47 (497)
                      .-+|+-+++..|+...++|++.|.+.|.
T Consensus        13 ~mGf~~~~a~~AL~~~~~n~e~A~~~L~   40 (40)
T 1z96_A           13 SMGFDPLEAAQALDAANGDLDVAASFLL   40 (40)
T ss_dssp             HTTCCHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             HcCCCHHHHHHHHHHcCCCHHHHHHHHC
Confidence            4469999999999999999999999874

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=80.14  E-value=1  Score=32.17  Aligned_cols=29  Identities=28%  Similarity=0.226  Sum_probs=26.4

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhcc
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (497)
                      .-+|+-+++..|++..++|++.|.+.|.+
T Consensus        13 ~MGF~~~~a~~AL~~~~~n~e~A~~~L~~   41 (43)
T 2g3q_A           13 GMGFTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             TTTSCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HcCCCHHHHHHHHHHhCcCHHHHHHHHHc
Confidence            55699999999999999999999999964

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	497
d2d9ia1	83	Nedd4-binding protein 2 {Human (Homo sapiens) [Tax	99.74
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	97.27
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	97.1
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	92.07
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	90.62
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	85.92
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	85.83
d1ufza_	83	HBS1-like protein {Mouse (Mus musculus) [TaxId: 10	84.63
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	83.34
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	82.7
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	80.26
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	80.05

>d2d9ia1 d.68.8.1 (A:8-90) Nedd4-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: SMR domain-like
family: Smr domain
domain: Nedd4-binding protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=1.2e-18  Score=142.30  Aligned_cols=77  Identities=25%  Similarity=0.279  Sum_probs=67.0

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CccHHHHHHHHHHcCCceEeeCCCeEEEE
Q 010943          408 LLLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTILI  482 (497)
Q Consensus       408 ~tIDLHGLhV~EAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~kegi~w~e~~n~GvIlI  482 (497)
                      ++|||||++|.||++.|++.|..+..    ......|+||||+|+||.++ +.++++|.++|++++|.|.+. |+|+|+|
T Consensus         2 ~~iDLHG~~~~eA~~~l~~~l~~~~~~~~~~~~~~~l~IItG~G~hS~~g~~~lk~~V~~~L~~~~~~~~e~-~~G~~~V   80 (83)
T d2d9ia1           2 NVLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEI-KPGCLKV   80 (83)
T ss_dssp             CEEECTTSCHHHHHHHHHHHHHHHHHHHHHTTCCSEEEEECCCSGGGTTCTTCHHHHHHHHHHHTTCCEECC-STTCEEE
T ss_pred             CeEECCCCCHHHHHHHHHHHHHHHHHhhhhcCCceEEEEEECCCCCCCCCcchHHHHHHHHHHHCCCceecC-CCcEEEE
Confidence            68999999999999999999976532    23457899999999999966 567889999999999999876 9999999


Q ss_pred             EeC
Q 010943          483 PLD  485 (497)
Q Consensus       483 ~L~  485 (497)
                      .|.
T Consensus        81 ~lk   83 (83)
T d2d9ia1          81 MLK   83 (83)
T ss_dssp             ECC
T ss_pred             EeC
Confidence            874

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.00022  Score=54.23  Aligned_cols=47  Identities=19%  Similarity=0.331  Sum_probs=40.1

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccccc
Q 010943          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLG  206 (497)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~~~  206 (497)
                      .|+.-+.|..|+-   .++.+||+.||-.|+|+|+.++|.||.|+.-..+
T Consensus         9 ~Ee~i~~LkeMFP---~~D~~vI~~VL~a~~G~vd~aid~LL~Msd~~~g   55 (59)
T d1wgla_           9 SEEDLKAIQDMFP---NMDQEVIRSVLEAQRGNKDAAINSLLQMGEEPSG   55 (59)
T ss_dssp             CHHHHHHHHHHCS---SSCHHHHHHHHTTTTTCHHHHHHHHHHSSCCCCS
T ss_pred             cHHHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHhcCCCCcC
Confidence            4455667888865   6999999999999999999999999999987653

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.10  E-value=0.00026  Score=52.96  Aligned_cols=43  Identities=14%  Similarity=0.220  Sum_probs=38.5

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 010943          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (497)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (497)
                      ++++-+-|..|+-   .||.+||++||-.|+|+++.++|.||.+|.
T Consensus        12 ~~e~~~~Lk~MFP---~~D~~VI~~VL~a~~G~vd~aidaLL~Msd   54 (54)
T d1mn3a_          12 RKDTLNTLQNMFP---DMDPSLIEDVCIAKKSRIEPCVDALLSLSE   54 (54)
T ss_dssp             HHHHHHHHHHHCT---TSCHHHHHHHHSCSSCSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCC---CCCHHHHHHHHHHcCCCHHHHHHHHHhccC
Confidence            6677788889975   599999999999999999999999999874

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=92.07  E-value=0.1  Score=40.37  Aligned_cols=44  Identities=18%  Similarity=0.393  Sum_probs=34.8

Q ss_pred             chhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccccc
Q 010943          156 LQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETL  205 (497)
Q Consensus       156 ~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~~  205 (497)
                      ..+.+++ |+.|   ||  +++..+..|-.|++||+.|+|.||+.+...+
T Consensus        29 ~ee~i~~-L~~M---GF--~~~~a~~AL~~~~~n~e~A~~~Ll~~~~pss   72 (73)
T d1vg5a_          29 SEEQIQK-LVAM---GF--DRTQVEVALAAADDDLTVAVEILMSQSGPSS   72 (73)
T ss_dssp             CHHHHHH-HHTT---TC--CHHHHHHHHHHHTSCHHHHHHHHHTCSCSSC
T ss_pred             CHHHHHH-HHHh---CC--CHHHHHHHHHHhCCCHHHHHHHHHhCCCCCC
Confidence            3444444 5555   66  8999999999999999999999999876543

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.62  E-value=0.12  Score=39.03  Aligned_cols=39  Identities=15%  Similarity=0.364  Sum_probs=31.3

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 010943          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (497)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (497)
                      |-.+..=||  ++..+++.|-.||+||+.|++.||..+..+
T Consensus        23 v~~L~~MGF--~~~~a~~AL~~~~~n~e~A~~~Lls~~~ps   61 (63)
T d1wgna_          23 VETVVNMGY--SYECVLRAMKKKGENIEQILDYLFAHSGPS   61 (63)
T ss_dssp             HHHHHHHHC--CHHHHHHHHHHHCSCHHHHHHHHHHHSCCC
T ss_pred             HHHHHHcCC--CHHHHHHHHHHcCCCHHHHHHHHHhCCCCC
Confidence            333333377  799999999999999999999999876554

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=85.92  E-value=0.24  Score=38.19  Aligned_cols=34  Identities=18%  Similarity=0.183  Sum_probs=31.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhccccCCC
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (497)
                      .=+|+-+++..|++.+++|++.|.++|.+-++.+
T Consensus        38 ~MGF~~~~a~~AL~~~~~n~e~A~~~Ll~~~~ps   71 (73)
T d1vg5a_          38 AMGFDRTQVEVALAAADDDLTVAVEILMSQSGPS   71 (73)
T ss_dssp             TTTCCHHHHHHHHHHHTSCHHHHHHHHHTCSCSS
T ss_pred             HhCCCHHHHHHHHHHhCCCHHHHHHHHHhCCCCC
Confidence            6669999999999999999999999999988754

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.83  E-value=0.22  Score=34.47  Aligned_cols=29  Identities=24%  Similarity=0.217  Sum_probs=26.7

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhcc
Q 010943           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (497)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (497)
                      .-+|+-+++-.|.+.+++|++.|.+.|.+
T Consensus        13 ~MGF~~~~a~~AL~~~~~N~e~A~~~LlS   41 (41)
T d1oqya1          13 SMGYERERVVAALRASYNNPHRAVEYLLT   41 (41)
T ss_dssp             TTTCCSHHHHHHHHHSCSSTTHHHHTTTT
T ss_pred             HcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            66799999999999999999999999964

>d1ufza_ a.5.9.1 (A:) HBS1-like protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: HBS1-like domain
family: HBS1-like domain
domain: HBS1-like protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.63  E-value=0.51  Score=37.39  Aligned_cols=39  Identities=21%  Similarity=0.501  Sum_probs=32.8

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 010943          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (497)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (497)
                      +-..|||  -++...+.++.=.|.|||+||||.+|+...+.
T Consensus        41 mR~VvGD--svpe~~lv~avlk~dydvekALd~vL~~~~~~   79 (83)
T d1ufza_          41 MREVLGD--AVPDDILTEAILKHKFDVQKALSVVLEQDGSG   79 (83)
T ss_dssp             HHHHTTT--TSCHHHHHHHHHHTTSCHHHHHHHHHHHHHTS
T ss_pred             HHHHHcc--cCCHHHHHHHHHHccCCHHHHHHHHHhccCCC
Confidence            4567898  67888888888899999999999999877654

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=83.34  E-value=0.65  Score=35.60  Aligned_cols=41  Identities=27%  Similarity=0.478  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 010943          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (497)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (497)
                      +++-+=|..|   |  .++..++..|-.||.|++.|++.||+....
T Consensus        30 ~~~i~~L~~M---G--F~~~~a~~AL~~~~~n~e~Av~~Lls~~~~   70 (73)
T d1wiva_          30 QSSVDTLLSF---G--FAEDVARKALKASGGDIEKATDWVFNNSGP   70 (73)
T ss_dssp             HHHHHHHHHH---T--CCHHHHHHHHHHTTSCHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHhc---C--CCHHHHHHHHHHcCCCHHHHHHHHHcCCCC
Confidence            3444445554   4  489999999999999999999999987554

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Activating signal cointegrator 1 complex subunit 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.70  E-value=0.54  Score=35.46  Aligned_cols=29  Identities=17%  Similarity=0.410  Sum_probs=26.4

Q ss_pred             ccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 010943          173 QLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (497)
Q Consensus       173 ~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (497)
                      .|+.+.|+.+|+.+|||+++.+..||+=+
T Consensus        19 dLG~GFi~~~L~~Y~~n~E~vI~~lLe~~   47 (63)
T d2di0a1          19 DLGEGFILACLEYYHYDPEQVINNILEER   47 (63)
T ss_dssp             SSCHHHHHHHHHHTTTCHHHHHHHHHTTC
T ss_pred             CCcHHHHHHHHHHhCCCHHHHHHHHHccC
Confidence            57888899999999999999999999944

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.26  E-value=1.2  Score=33.01  Aligned_cols=37  Identities=16%  Similarity=0.443  Sum_probs=30.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 010943          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (497)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (497)
                      +=|+.|   |  .++...+..|-+|++||++|++.||+....
T Consensus        14 ~~L~~M---G--F~~~~a~~AL~~~~~~~e~A~~wL~~~~~~   50 (63)
T d1wjia_          14 KHITEM---G--FSKEASRQALMDNGNNLEAALNVLLTSNKQ   50 (63)
T ss_dssp             HHHHTT---T--CCHHHHHHHHHHTTSCHHHHHHHHHHHSSC
T ss_pred             HHHHHc---C--CCHHHHHHHHHHhCCCHHHHHHHHHHCCCC
Confidence            335555   4  578999999999999999999999997654

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.05  E-value=0.49  Score=32.62  Aligned_cols=38  Identities=16%  Similarity=0.319  Sum_probs=29.6

Q ss_pred             HHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 010943          160 MEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (497)
Q Consensus       160 ~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (497)
                      .|+-+-++..=|  .+++.++..|-.|++|++.|++.||.
T Consensus         4 ~e~~i~~L~~MG--F~~~~a~~AL~~~~~N~e~A~~~LlS   41 (41)
T d1oqya1           4 YETMLTEIMSMG--YERERVVAALRASYNNPHRAVEYLLT   41 (41)
T ss_dssp             HHHHHHHHHTTT--CCSHHHHHHHHHSCSSTTHHHHTTTT
T ss_pred             HHHHHHHHHHcC--CCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            444455555445  57889999999999999999999974