Citrus Sinensis ID: 011024

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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
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
Secondary Structure (PSIPRED)
ccccccccccccHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHccccccccccHHHHHHcccccccccccccccccccHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEcccccHHHHHHHHHHHHHHHHccccccEEEEEEccccccccccccHHHHHHHHHHccccEEEccccEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccccccccccccccccccHHHcccccccccccccEEEEEcccEEcEccccccccccccccccccccccccccccccHHHccccccccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEcccccHHHHHHHHHHHHHHHHHcccccEEEEEEEccccccccccccHHHHHHHHHcccEEEcccccEEEEEEccccccccEEEccc
Coil and Loop (DISEMBL)
mevsgskglnydieekalngsvFTMQEIALACRnagrnpdlageslcdkqanastssihpstgeargkesskssnsniseksfyangkskppktkwhpvsggtvssflgkdyvkpaqptngtglaskplkldpkefpmsalwgeetkpkqskgdHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICstfggsqreRKLQQLNssggrakedpntnkgellkhpkdrNELQKEVFAALFsapkksdefpeIMVKTKRRSkalgkvvsgppedlvpeYKANVVHLQqdnqnnnveedSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFetsgrnrdtknDLLLDLHDHGAKEAIRLLKCHlsslsgiptiKYLKVILEMndedttkggrRRRVMKLLEEESIewteegnagtilipldkvnpktlsftkk
Flexible Loop (DISEMBL)
mevsgskglnydiEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANastssihpstgeargkesskssnsniseksfyangkskppktkwhpvSGGTVSSFLGKDYVKPAqptngtglaskplkldpKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTkflgkssekCMDICStfggsqrerKLQQLNssggrakedpntnkgellkhpkdrnELQKEVFAAlfsapkksdefpeIMVKTkrrskalgkvvsgppedlVPEYKANVVHLQqdnqnnnveedsfQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAreadeesnkkifetsgrnrdtknDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILemndedttkggrrrrVMKLLEEesiewteegnagtilipldkvnpktlsftkk
Low Complexity Region (SEG)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGkesskssnsniseksFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLqqdnqnnnVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLeeesiewteeGNAGTILIPLDKVNPKTLSFTKK
Disordered region (IsUnstruct)
************IEEKALNGSVFTMQEIALACRN*******************************************************************************************************************************DFLFKLLGEGFQLSRDVIREVLDSCGYDMQ*****************************DIC**************************************************************************************************************FQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFY***************************LLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMN***************LL***SIEWTEEGNAGTILIPLD************
Disordered Region (DISOPRED)
*****************LNGSVFTMQEIALACRNAGRNPDLAGESL********************************************************TVSSFLGKDYV*****************LDPKEF*************************DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSM******************************************************************************************************************************************SFQHLRTAVMEYRGTMK*Y*****************KLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLS*IPTIKYLKVILEMND***********VMKLLEEESIEWTEEGNAGTILIPLDKVNPK*******
Disordered Region (DISEMBL)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDK****************************ISEKSFYA************PVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEE**********LQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKA********KKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
Disordered Region (DISPRO)
**********YDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQ*******************************************TKWHPVSGGTVSSFLGKDYVKP**************************************DHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS*************************G**Q*********************************NELQKEVFAALFSAPK**************************************************EEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFT**
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)
MEVSGSKGLNYDIEEKALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK
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	495
255556035	501	conserved hypothetical protein [Ricinus	0.971	0.960	0.558	1e-143
224079237	505	predicted protein [Populus trichocarpa]	0.985	0.966	0.515	1e-122
224125304	504	predicted protein [Populus trichocarpa]	0.995	0.978	0.505	1e-121
356549339	496	PREDICTED: uncharacterized protein LOC10	0.977	0.975	0.475	1e-109
357446573	487	hypothetical protein MTR_2g013430 [Medic	0.961	0.977	0.438	2e-93
449433849	504	PREDICTED: uncharacterized protein LOC10	0.935	0.918	0.435	2e-86
224128350	703	predicted protein [Populus trichocarpa]	0.945	0.665	0.404	2e-85
255575308	511	ATP binding protein, putative [Ricinus c	0.927	0.898	0.371	1e-64
240255350	490	protein silencing defective 5 [Arabidops	0.907	0.916	0.352	2e-59
297789469	468	hypothetical protein ARALYDRAFT_497335 [	0.862	0.912	0.350	2e-59

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

 Score =  514 bits (1325), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 274/491 (55%), Positives = 350/491 (71%), Gaps = 10/491 (2%)

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 EDLVPEYKANVVHLQQDNQNN--NVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDH 364
            D + E  ++ +  + DN NN    EEDS+Q LR AV EYR TMKEY KAA++AFA GD+
Sbjct: 311 TDFILEPNSHPIGSKLDNDNNVDEEEEDSYQLLRRAVKEYRVTMKEYYKAAVNAFANGDY 370

Query: 365 VQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLKC 424
            +A KL+++G FF+EKAR+ADEES++KIFET  +N DT+++L LDLHDHGAKEA+RLLKC
Sbjct: 371 DRANKLMDKGHFFHEKARKADEESSQKIFET--KNVDTRDELTLDLHDHGAKEAMRLLKC 428

Query: 425 HLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDK 484
           HLSSLSGI +IKYLKVI+E ++EDT+KG RRR VMKLLE+ESI+W+E GNAG+IL+ LD 
Sbjct: 429 HLSSLSGIASIKYLKVIIETDEEDTSKGARRRVVMKLLEKESIKWSEGGNAGSILVRLDN 488

Query: 485 VNPKTLSFTKK 495
           +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 =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 264/512 (51%), Positives = 345/512 (67%), Gaps = 24/512 (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 RSKALGKVVSGPPEDLVPEYKANVVHLQQD-NQNNNVE----EDSFQHLRTAVMEYRGTM 348
           RS   G+ V+ P  D   E KA+ V+ QQD ++ ++VE    EDS+Q LR A  EYR TM
Sbjct: 297 RSIVYGEPVAEPLTDFTLENKADSVYSQQDYDKVSSVEDKDGEDSYQLLRKAWKEYRATM 356

Query: 349 KEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLL 408
            EY KA  DAFA+GD+ +A KL+++G FF +KA E DEES +KIFE+  +N +T++++LL
Sbjct: 357 NEYYKAGGDAFAKGDYERANKLMDEGLFFRDKAHEVDEESTQKIFES--KNVETQDEMLL 414

Query: 409 DLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDE-----DTTKGGRRRRVMKLLE 463
           DLH++G K+AIR L+ +L  LSGIP+ KYLKVI+E N E     D TKG RRR +MKLLE
Sbjct: 415 DLHEYGTKDAIRSLRSNLLLLSGIPSFKYLKVIIESNKEDVTKRDVTKGARRRLIMKLLE 474

Query: 464 EESIEWTEEGNAGTILIPLDKVNPKTLSFTKK 495
           +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 =  442 bits (1136), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 256/506 (50%), Positives = 329/506 (65%), Gaps = 13/506 (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 SKALGKVVSGPPEDLVPEYKANVVHLQQDNQN-----NNVEEDSFQHLRTAVMEYRGTMK 349
           S   G+ V  PP D   E + + +   QD  N     +  E+DS+  LR A  EYR TM 
Sbjct: 301 SIVYGEPVVEPPTDFTLENRTDFMDSLQDYDNVLSVEDVDEDDSYHLLRKAWKEYRTTMN 360

Query: 350 EYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLD 409
           E+ KAA DAFA+GD  +A KL+++G FF +KA E DEES +KIF T  +N +T++ +LLD
Sbjct: 361 EFYKAAGDAFAKGDDERANKLMDEGNFFRDKAYEVDEESTQKIFGT--KNVETQDQMLLD 418

Query: 410 LHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEW 469
           LH+HGAK+AIR LK +   LSGIP+ K LKVI+E N+ D TKG RRR +MKLLE+ESI W
Sbjct: 419 LHEHGAKDAIRSLKSNFLLLSGIPSFKDLKVIIETNEVDVTKGARRRLIMKLLEKESINW 478

Query: 470 TEEGNAGTILIPLDKVNPKTLSFTKK 495
           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 =  403 bits (1035), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 240/505 (47%), Positives = 324/505 (64%), Gaps = 21/505 (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 TKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQHLRTAVMEYRGTMKE 350
              +    G VV  PP+D   E+  ++   +Q+N ++  +E+ ++++R AV EYRGTM E
Sbjct: 294 DFNKKSRYGHVVFEPPKDFPEEFDFDMDFSRQENIDDPEDEEEYKNVRRAVKEYRGTMNE 353

Query: 351 YCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDL 410
           Y KAA+D+FA+GD ++AEKLLEQG+FF  KA +ADEESNK I ET  RN + + +++LDL
Sbjct: 354 YYKAAVDSFAKGDQMKAEKLLEQGQFFLRKAHDADEESNKMILET--RNTEAQ-EMVLDL 410

Query: 411 HDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRR-RVMKLLEEESIEW 469
            DHG+KEAIRLLKCHLSSLSGIP+ +YLKVI++ ND+D TKG RRR RV KLLE+ESI W
Sbjct: 411 RDHGSKEAIRLLKCHLSSLSGIPSFEYLKVIVDANDKDNTKGSRRRLRVFKLLEQESITW 470

Query: 470 TEEGNAGTILIPLDKVNPKTLSFTK 494
            E   A TILI L  +  K LSF K
Sbjct: 471 VEGETADTILIRLASIERKRLSFVK 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 =  349 bits (895), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 221/504 (43%), Positives = 308/504 (61%), Gaps = 28/504 (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 TKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQHLRTAVMEYRGTMKE 350
            K+    +G VV  PP+D + E+K ++   +++N+++  +E  +Q  R AV EYR TMKE
Sbjct: 286 NKKSPYGVGHVVFEPPKDTMEEHKIDMDFRRRENEDDAEDEADYQSARKAVKEYRVTMKE 345

Query: 351 YCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDL 410
           Y KAA+DAFA GD  +AEKLL+QG+F+  KAREAD+E +K I ET     +   +++LDL
Sbjct: 346 YYKAAVDAFANGDQAKAEKLLDQGQFYLNKAREADDECSKMILETKA---EETQEMVLDL 402

Query: 411 HDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWT 470
            DH  K AIRLLK HLSSLSGI + +YLKVI + ND+   K   R  V+KLLE+ESI+W 
Sbjct: 403 RDHEPKVAIRLLKTHLSSLSGISSFEYLKVIFDANDQANKKRSTRVMVLKLLEQESIKWV 462

Query: 471 EEGNAGTILIPLDKVNPKTLSFTK 494
           E   AGTILI LD ++   LSF K
Sbjct: 463 EGETAGTILIRLDNIDRNRLSFYK 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 =  326 bits (835), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 211/485 (43%), Positives = 296/485 (61%), Gaps = 22/485 (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 YKANVVHLQQDNQNNNVE--EDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKL 370
            +  V +  Q + +  VE  E+S+Q LR AV EYRGTMKEY  AAIDAFA+GD V+A KL
Sbjct: 319 REKPVEYNDQIDLDVEVEDEENSYQLLRKAVREYRGTMKEYYAAAIDAFAKGDSVRAAKL 378

Query: 371 LEQGKFFYEKAREADEESNKKIFETSGRNRDTKND-LLLDLHDHGAKEAIRLLKCHLSSL 429
           +++G FF++KA+EAD++SN+ IFE   R+ DT++D +LLDLHD G KEA+++LK  +SSL
Sbjct: 379 IDEGHFFHKKAQEADKQSNQLIFEP--RHADTEDDEMLLDLHDLGGKEAVKVLKSQISSL 436

Query: 430 SGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLDKVNPKT 489
           SGIP+IK+LKVI+E +D++T+K   RR VMKLLE+ESIEWTEE N   ILI LD ++ K 
Sbjct: 437 SGIPSIKHLKVIMEADDKNTSKRSCRRLVMKLLEKESIEWTEEENGSYILIHLDTIDRKR 496

Query: 490 LSFTK 494
           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 =  322 bits (826), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 200/494 (40%), Positives = 301/494 (60%), Gaps = 26/494 (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 SGPPEDLVPEYKANVVHLQQDNQNN-NVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQ 361
             P +D   E+K +      D +     +E+S++ LR AV EY  T KE+ KAA DAFA+
Sbjct: 322 VTPHKDTAKEHKPSAAKPLADTRGEAEGDENSYEVLRKAVKEYWITKKEFYKAAADAFAE 381

Query: 362 GDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRL 421
           GDH +A+KL++QG+FF EKAREADE+S +K+ ET    RD +  + LDL     KEA+  
Sbjct: 382 GDHARADKLMDQGQFFNEKAREADEKSFQKLMET----RDDEI-VSLDLLGFEPKEALHS 436

Query: 422 LKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIP 481
           L+ HL+S SGIP+IKYL+V++E +++DTTKG RRR +MK LE+ESI+WT+EGN   ILI 
Sbjct: 437 LRFHLTSFSGIPSIKYLRVVIENDEKDTTKGKRRRLIMKQLEKESIKWTDEGNGQIILIQ 496

Query: 482 LDKVNPKTLSFTKK 495
           +D ++PK LSF +K
Sbjct: 497 VDAIDPKHLSFAEK 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 (647), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 194/522 (37%), Positives = 279/522 (53%), Gaps = 63/522 (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 MDICST--FGGSQRERKLQQL-NSSGGRAKEDPNTNKGELLKHPKDRNELQKEVFAALFS 276
              CS   +   Q + +      S G R  E   T   E     K+R  LQKEV   LF 
Sbjct: 234 AGECSDQEYALLQGQLQQLDFAQSDGARLMERTLTGSTE---TEKNRIGLQKEVLQTLFD 290

Query: 277 APKKSDEFPE--IMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSF 334
            P +S+E P+   +V+  ++ K   K+V  PPED   + K +    Q  N+  +  +DS+
Sbjct: 291 FPGRSEEAPKRTRLVRAVKKPKVFSKLVFEPPEDATRQDKHSAAESQAVNREED-NDDSY 349

Query: 335 QHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFE 394
           + LRTAV EY  TMKEY KAA+DAF  GDH +A KLLE+G+FF  KAR AD++S +K+ E
Sbjct: 350 EVLRTAVKEYWFTMKEYYKAAVDAFVNGDHARANKLLEKGQFFNNKARAADDKSFQKLVE 409

Query: 395 TSGRNRDTKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGR 454
           T  R+ D    + LDLH    KEA+RLL+ HL+S+SGI +IKYL+VI++ NDEDT+KG R
Sbjct: 410 T--RDADV---MSLDLHGLEPKEALRLLRLHLTSISGILSIKYLRVIIKSNDEDTSKGAR 464

Query: 455 RRR-VMKLLEEESIEWTEEGNAGTILIPLDKVNPKTLSFTKK 495
           +R  ++K LE+ESI+W +E +  TILI +D ++PK LSF KK
Sbjct: 465 KRNLILKQLEKESIKWNDESDGKTILIQVDAIDPKRLSFAKK 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 =  236 bits (603), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 174/493 (35%), Positives = 274/493 (55%), Gaps = 44/493 (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 DLVPEYKANVVHLQQDNQNNNVEEDS--FQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHV 365
           D    ++  VV ++Q +  +  ++D   F+  R AV E+   MKEY  AA +AF++G+  
Sbjct: 303 D---PFQERVVAVKQSSNTSKEDDDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETE 359

Query: 366 QAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLL 422
           +A +L+E+G FF +KAREAD++S  K+ + +  +  T  +   + +++++H AKEA+RLL
Sbjct: 360 RAHRLVEKGHFFGQKAREADDKSVAKMIDVNQEDDSTYEEDEVVTVNMNEHEAKEALRLL 419

Query: 423 KCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPL 482
           K  L   SGI + KYL+V L    ED     +R+ ++KLLE ESI WTEE     I+I +
Sbjct: 420 KRQLIYFSGISSFKYLRVQLGEKKEDFK--SKRKHIVKLLEGESIPWTEEDGGLVIMIRV 477

Query: 483 DKVNPKTLSFTKK 495
           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 =  236 bits (601), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 173/493 (35%), Positives = 265/493 (53%), Gaps = 66/493 (13%)

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 DLVPEYKANVVHLQQDNQNNNVEED--SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHV 365
           D    ++  VV +++ +  +  +ED   F+  R AV E+   MKEY  AA +AF++G+  
Sbjct: 281 D---PFQERVVAVKKSSNTSKEDEDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETE 337

Query: 366 QAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLL 422
           +A +L+E+G FF +KAREAD++S  K+ +    +  T  +   + +++++H  KEA+RLL
Sbjct: 338 RAHRLVEKGHFFGQKAREADDKSIAKMIDVKKDDDSTYEEDEVVTVNVNEHETKEALRLL 397

Query: 423 KCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEEGNAGTILIPL 482
           K  L+  SGI + KYL+V L    ED     +R+ ++KLLE ESI WTEE +   ++I +
Sbjct: 398 KRQLNFFSGISSFKYLRVALGDKKEDFK--SKRKHIVKLLEGESIAWTEEDSGLVMMIRV 455

Query: 483 DKVNPKTLSFTKK 495
           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	495
TAIR|locus:2090181	490	SDE5 "AT3G15390" [Arabidopsis	0.927	0.936	0.327	2.3e-55
TAIR|locus:2178878	519	AT5G58720 "AT5G58720" [Arabido	0.844	0.805	0.268	1.4e-22

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

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 158/483 (32%), Positives = 255/483 (52%)

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   E + 
Sbjct:   256 AK-----NGLEKEVLEALFSGAERYVDKPKVTRHFGERRPGVAGRPVFKPLEDPFQE-RV 309

Query:   316 NVVHLXXXXXXXXVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGK 375
               V           +E+ F+  R AV E+   MKEY  AA +AF++G+  +A +L+E+G 
Sbjct:   310 VAVKQSSNTSKEDDDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETERAHRLVEKGH 369

Query:   376 FFYEKAREADEESNKKIFETSGRNRDTKND---LLLDLHDHGAKEAIRLLKCHLSSLSGI 432
             FF +KAREAD++S  K+ + +  +  T  +   + +++++H AKEA+RLLK  L   SGI
Sbjct:   370 FFGQKAREADDKSVAKMIDVNQEDDSTYEEDEVVTVNMNEHEAKEALRLLKRQLIYFSGI 429

Query:   433 PTIKYLKVILEMNDEDTTKGGRRRRVMKLLXXXXXXXXXXGNAGTILIPLDKVNPKTLSF 492
              + KYL+V L    ED     +R+ ++KLL               I+I +D+++PK LSF
Sbjct:   430 SSFKYLRVQLGEKKEDFKS--KRKHIVKLLEGESIPWTEEDGGLVIMIRVDEIDPKKLSF 487

Query:   493 TKK 495
              KK
Sbjct:   488 AKK 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 = 285 (105.4 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 129/480 (26%), Positives = 210/480 (43%)

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-NTNKGELLKHPKDRNELQKEVFAALFSAPK--KSDEFPEIMVKTKRRSKALGKVVS 303
             +DP  T +G       D   L ++V  +LF+  +  K +          ++ ++LG   S
Sbjct:   285 QDPFATTQGI------DELGLPQKVLESLFNIRQNPKHESKTTSWRNVAKKMQSLGIDAS 338

Query:   304 GPPEDLVPEYKANVVHLXXXXXXXXVEEDSFQHLRTAVMEYRGTMKEYCKAAIDAFAQGD 363
                 +   E   N            V++DS+  LR    +     K Y + A +A+++G 
Sbjct:   339 SSSGE---EPHPNTF----------VKDDSYHELRKGANDQWNVTKSYYQKAAEAYSKGG 385

Query:   364 HVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAKEAIRLLK 423
                A  L ++G+   ++A+ ADE +++ IF    RN+  +N + +DLH    K A++LLK
Sbjct:   386 RAHAAYLSDKGRVASKQAQRADERASQDIFVA--RNKGIENVVTIDLHGQHVKPAMKLLK 443

Query:   424 CHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLXXXXXXXXXXGNAGTILIPLD 483
              HL   S +P+I+ L+VI         K   ++ V+KLL           N GT+LI LD
Sbjct:   444 LHLLFGSYVPSIQTLRVITGCGASGFGKSKVKQSVVKLLEREGVRYCEE-NRGTLLIKLD 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        0.313   0.131   0.373    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      495       462   0.00096  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:  260 KB (2138 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:  46.14u 0.10s 46.24t   Elapsed:  00:00:02
  Total cpu time:  46.14u 0.10s 46.24t   Elapsed:  00:00:02
  Start:  Tue May 21 10:16:26 2013   End:  Tue May 21 10:16:28 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

Your Input: fgenesh4_pg.C_LG_IV000538 hypothetical protein (505 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	495
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: 333 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKI 392
            +Q LR    ++     E  + A +A+ +GD   A++L E+GK   EKA EA+ ++ + I
Sbjct: 1   EYQRLRAEADKHGQKRNELFQKAAEAYKRGDKAAAKELSEEGKKHGEKAEEANRQAAEAI 60

Query: 393 FE 394
           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	495
PF08590	66	DUF1771: Domain of unknown function (DUF1771); Int	99.65
smart00463	80	SMR Small MutS-related domain.	99.58
PF01713	83	Smr: Smr domain; InterPro: IPR002625 This family i	99.5
KOG2401	448	consensus Predicted MutS-related protein involved	98.87
COG2840	184	Uncharacterized protein conserved in bacteria [Fun	98.11
PRK04946	181	hypothetical protein; Provisional	98.04
PRK00409	782	recombination and DNA strand exchange inhibitor pr	97.54
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	97.41
KOG2401	448	consensus Predicted MutS-related protein involved	96.46
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	96.0
smart00546	43	CUE Domain that may be involved in binding ubiquit	94.95
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	94.87
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	89.99
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	89.82
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	83.81
PF08938	79	HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This	83.81
PF03474	39	DMA: DMRTA motif; InterPro: IPR005173 This region	81.87
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	80.69

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

Probab=99.65  E-value=2.4e-17  Score=132.60  Aligned_cols=65  Identities=32%  Similarity=0.502  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 011024          333 SFQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRN  399 (495)
Q Consensus       333 ~Y~~~R~~A~~h~~~Rne~f~kAa~AY~kGd~a~A~~LSeqGk~~~~kmrean~~AA~~If~~r~~N  399 (495)
                      +|..+|.+|.+|++.|++||++|++||.+||++.|++||++||.|.++|+++|.+||++||..|  |
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=99.58  E-value=4e-15  Score=122.47  Aligned_cols=78  Identities=27%  Similarity=0.344  Sum_probs=68.4

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCC-CCCcchHHHHHHHHHcCCceEeeCCCeEEEEEeC
Q 011024          406 LLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDT-TKGGRRRRVMKLLEEESIEWTEEGNAGTILIPLD  483 (495)
Q Consensus       406 ~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~-g~~k~kpAV~klL~eegi~~~e~~n~G~IlI~L~  483 (495)
                      ++|||||++|.||+.+|+..|..+...+....++||||+|+||. |...++++|.++|...+|.|.++.|.|+++|.|.
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            68999999999999999999998875432268999999999998 4567889999999999999987569999999874

>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=99.50  E-value=2e-14  Score=119.05  Aligned_cols=73  Identities=29%  Similarity=0.449  Sum_probs=58.4

Q ss_pred             eecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCCceEe----------eCCCeE
Q 011024          408 LDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTE----------EGNAGT  477 (495)
Q Consensus       408 IDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi~~~e----------~~n~G~  477 (495)
                      |||||++++||++.|+..|..+... ....++||||+|+||.++. ++++|.++|++ ++.|.+          ..|.|+
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            8999999999999999999987644 3489999999999999886 99999999988 766543          129999


Q ss_pred             EEEEeC
Q 011024          478 ILIPLD  483 (495)
Q Consensus       478 IlI~L~  483 (495)
                      ++|.|.
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=98.87  E-value=2e-09  Score=114.85  Aligned_cols=400  Identities=13%  Similarity=0.047  Sum_probs=213.4

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhcccCCCCCcccCCCCCccCCCCCCCCCCCCccccccccCCCCCCCCCcceec
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEARGKESSKSSNSNISEKSFYANGKSKPPKTKWHPV   99 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~sts~~~~s~~~~~~~~~~~~~~~~~~e~~~~~~~~~k~~k~k~~~v   99 (495)
                      ++.|.+.++..|+++++..+++...++.+++..++...-.-.+.+.+ .+++......++.....   ..+....+....
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~-~~s~~~~~~~~~~~~~~---~~~~~~~~~~~~   99 (448)
T KOG2401|consen   24 SFSFKLVDLKAASEESSDEVDLGPPELSEMATSTSSADRLQYTIELL-EPSPSSVSFESLRARAS---DENVDRGNQERI   99 (448)
T ss_pred             hhhhhhHhhhhcccccccccccCCCcchhhccccchhhhhccccccc-CCCcccccccccccchh---hhccccHHHHhh
Confidence            56688888999999999999988888888877553222222333322 11111111111111111   011122333444


Q ss_pred             ccccccccccccccccCCCCCCCcccCCCCcCCCCCCCccccccCCC-CCCCCCCccchhHHHHHHHHHhcCccccCHHH
Q 011024          100 SGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEET-KPKQSKGDHLQKEMEDFLFKLLGEGFQLSRDV  178 (495)
Q Consensus       100 s~GtVSsviGK~y~r~~~~~~~~~~~~kp~k~~~k~~~~~~~w~~~~-~~~~~~~~~~~~d~E~FL~~MLG~gf~L~~~v  178 (495)
                      .-.....+.|+.+++............+++..+.+.+|....|.++. -++.+.........+++|+.|..+++.-+--.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~n~~  179 (448)
T KOG2401|consen  100 LDRSRNQVAGKLKVSFVEKKLNEEEPQKEINPDGRILPEDPSFEESFRVENGFDPGEAIAFKIEDLPQKQVEGEDVDNCK  179 (448)
T ss_pred             cccccccccccccccccccccCccccccccCCcccccccccchHHHHHHhccCccchhhhcchhhhccccccccccccce
Confidence            55678889999999999888888888888888888777766654333 33333333333344444444444444333333


Q ss_pred             HHHHHHhcCCcHHHHHHHHHcccccccccccccccccccccccccCCcCcchhHhhhhhhccCCCCCcCCCCCCcccccC
Q 011024          179 IREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGELLK  258 (495)
Q Consensus       179 Ir~VL~~cGyDv~ks~d~LLd~s~~~~~k~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~  258 (495)
                      |. ...+|.+|..++..-.++-+.+....    ......         +...       +  .+........        
T Consensus       180 ~~-~~~~~~~d~~~~~~~~~~~~~~~~~~----~~~~~~---------~~~~-------~--~~~~~~~~~~--------  228 (448)
T KOG2401|consen  180 VK-NQITNSSDSKMATEPGLNDSLKKAYE----NVDSSE---------ESVE-------L--LRKEGFSVDV--------  228 (448)
T ss_pred             ee-ccccccccccccccccccchhhcccc----ccCcch---------hhhh-------h--hccCCCCccC--------
Confidence            33 33444444444333333333222110    000010         0000       0  0000000000        


Q ss_pred             CCcchhhhHHHHHHHhccCCCCCCcchhhH-HHhhhccccCCccccCCCCCCcccccccccccccccCC---CccchhHH
Q 011024          259 HPKDRNELQKEVFAALFSAPKKSDEFPEIM-VKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQN---NNVEEDSF  334 (495)
Q Consensus       259 ~~~~~~~l~~~vle~lF~~~e~~~~~p~~~-~~~~~~~~~~g~~v~~p~~d~~~~~~~~~~~s~q~n~~---~~~~d~~Y  334 (495)
                      .......-...+++..+..++.....+.+. -...+++-..+++.+++.++.....-  ......++-.   ..+....|
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~d~~~~~~~~~~~~~~~  306 (448)
T KOG2401|consen  229 PSNAEKNSAKRLEELQKSQPEEDKAKKLRDQLYKSKRPAGSGKCLRKRHELSDKPRG--VLQAEDDYNADELSDEFGNKE  306 (448)
T ss_pred             cchhhcccccchhhcchhhhccchhhhHHHhhhhhcccccccchhhhhhhhhhhhhh--hhhcccccchhhhhhhhhhhh
Confidence            000111112233333333333333332222 12233333333455544433322211  0011111100   12233334


Q ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCeeecCCC
Q 011024          335 QHLRTAVMEYRG-TMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDH  413 (495)
Q Consensus       335 ~~~R~~A~~h~~-~Rne~f~kAa~AY~kGd~a~A~~LSeqGk~~~~kmrean~~AA~~If~~r~~N~~~~~~~tIDLHGL  413 (495)
                      ......+++..+ .+..++++|+.++..+....|.++.-.+......+......+-+.++...  |.......+.++|+.
T Consensus       307 s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~a~~~~~~--~~~~~r~~~~~~~~~  384 (448)
T KOG2401|consen  307 SIKSEREIDNQRLYKKAAEQKAQPEIEDAINLQASELKPKVSLAVKGSYAVAKLKPATQWKLD--NEEIERRSEVGEHGE  384 (448)
T ss_pred             hhhhhHHhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhchhhhhcccccchhhhcchHHHHHHh--hhhhhcccccccchh
Confidence            444555555555 77889999999999999999999999988777666666555555566666  656666788999999


Q ss_pred             CHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCCceEee
Q 011024          414 GAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESIEWTEE  472 (495)
Q Consensus       414 hVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi~~~e~  472 (495)
                      +|.++...++              +.|++|+|.||.+...+.+++.+.++..++.+...
T Consensus       385 ~i~~~~~~~~--------------~qv~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~  429 (448)
T KOG2401|consen  385 KISELSRRLK--------------LQVLFGRGIHSRGEARLPRAEKRSYEDPPQGFVEE  429 (448)
T ss_pred             hhHhHhhhcc--------------ccccccccccCccchhhhhhhhhhccCCccceeee
Confidence            9998776543              44889999999998888888888788888765443

>COG2840 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.11  E-value=8.5e-06  Score=78.37  Aligned_cols=81  Identities=16%  Similarity=0.202  Sum_probs=64.7

Q ss_pred             CCCCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCC-cchHHHHHHHHHcCC--ceEeeC----C
Q 011024          402 TKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKG-GRRRRVMKLLEEESI--EWTEEG----N  474 (495)
Q Consensus       402 ~~~~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~-k~kpAV~klL~eegi--~~~e~~----n  474 (495)
                      ...+..|||||+.++||-..|-..|..+... ....+.||+|+|. |.|+. -++++|-.+|.++-.  .|++..    .
T Consensus        93 ~~~e~~LDLHG~tq~eAr~~L~~Fi~~a~~~-~~rcv~VihGkG~-s~g~~~vLK~~Vp~WL~qhp~V~a~~~a~~~hGG  170 (184)
T COG2840          93 YPPEARLDLHGLTQEEARQELGAFIARARAE-GLRCVLVIHGKGR-SKGSKPVLKSQVPRWLTQHPDVLAFHQAPRRHGG  170 (184)
T ss_pred             CCcceeeeccCCCHHHHHHHHHHHHHHHHHh-CCcEEEEEeCCCc-CCCCchhHHHHHHHHHHhChHHHhhcccchhcCC
Confidence            3457899999999999999999999988643 4578999999999 99855 468899999999533  244432    6


Q ss_pred             CeEEEEEeCC
Q 011024          475 AGTILIPLDK  484 (495)
Q Consensus       475 ~G~IlI~L~g  484 (495)
                      .|.|+|.|.-
T Consensus       171 ~GAlyVlL~~  180 (184)
T COG2840         171 DGALYVLLRR  180 (184)
T ss_pred             ceEEEEEEec
Confidence            7899998864

>PRK04946 hypothetical protein; Provisional

Probab=98.04  E-value=1.3e-05  Score=76.91  Aligned_cols=78  Identities=14%  Similarity=0.165  Sum_probs=62.8

Q ss_pred             CCCCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCC--ceEee----CCC
Q 011024          402 TKNDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEE----GNA  475 (495)
Q Consensus       402 ~~~~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi--~~~e~----~n~  475 (495)
                      ...+.+|||||+.++||...|...|..+.. .....+.||.|+|.     +.++.+|..+|.+.-.  .|+..    .+.
T Consensus        92 ~~~~~~LDLhG~~~eeA~~~L~~fl~~a~~-~g~r~v~IIHGkG~-----gvLk~~V~~wL~q~~~V~af~~A~~~~GG~  165 (181)
T PRK04946         92 YSPELFLDLHGLTQLQAKQELGALIAACRK-EHVFCACVMHGHGK-----HILKQQTPLWLAQHPDVMAFHQAPKEWGGD  165 (181)
T ss_pred             CCCceEEECCCCCHHHHHHHHHHHHHHHHH-cCCCEEEEEcCCCH-----hHHHHHHHHHHcCCchhheeeccCcccCCc
Confidence            334799999999999999999999988754 34578999999996     4678899999988755  36542    278


Q ss_pred             eEEEEEeCCC
Q 011024          476 GTILIPLDKV  485 (495)
Q Consensus       476 G~IlI~L~g~  485 (495)
                      |.++|.|...
T Consensus       166 GA~~VlLk~~  175 (181)
T PRK04946        166 AALLVLIEIE  175 (181)
T ss_pred             eEEEEEEecC
Confidence            9999999764

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=97.54  E-value=0.00017  Score=82.63  Aligned_cols=73  Identities=21%  Similarity=0.238  Sum_probs=59.7

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCC--ceEeeC----CCeEE
Q 011024          405 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEEG----NAGTI  478 (495)
Q Consensus       405 ~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi--~~~e~~----n~G~I  478 (495)
                      ..+|||||+.|+||+..|+..|..+... +...++||.|+|.     +.++.+|.+||+++-+  .|+...    +.|+.
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 4588999999985     4789999999998865  355432    78999


Q ss_pred             EEEeC
Q 011024          479 LIPLD  483 (495)
Q Consensus       479 lI~L~  483 (495)
                      +|.|.
T Consensus       778 ~V~lk  782 (782)
T PRK00409        778 IVELK  782 (782)
T ss_pred             EEEEC
Confidence            99873

>TIGR01069 mutS2 MutS2 family protein

Probab=97.41  E-value=0.00027  Score=80.82  Aligned_cols=72  Identities=24%  Similarity=0.357  Sum_probs=58.8

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCC--ceEee----CCCeEE
Q 011024          405 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEE----GNAGTI  478 (495)
Q Consensus       405 ~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi--~~~e~----~n~G~I  478 (495)
                      ..+|||||+.++||++.|...|..+.- .+...++||.|+|.     +.++++|..||++.-+  .|+..    .+.|+.
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 SLTLDLRGQRSEEALDRLEKFLNDALL-AGYEVVLIIHGKGS-----GKLRKGVQELLKNHPKVKSFRDAPPNDGGSGVT  766 (771)
T ss_pred             CceEECCCCCHHHHHHHHHHHHHHHHH-CCCCEEEEEcCCCh-----hHHHHHHHHHhcCCcceeeecccCcccCCceEE
Confidence            569999999999999999999987643 24578999999995     4689999999999865  35432    278899


Q ss_pred             EEEe
Q 011024          479 LIPL  482 (495)
Q Consensus       479 lI~L  482 (495)
                      +|.|
T Consensus       767 ~V~l  770 (771)
T TIGR01069       767 IVYL  770 (771)
T ss_pred             EEEE
Confidence            9987

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=96.46  E-value=0.0061  Score=65.69  Aligned_cols=356  Identities=13%  Similarity=0.032  Sum_probs=212.9

Q ss_pred             cCHHHHHHHHHHhCCCchhhhhhhhcccCCCCCcccCCCCCcc------CCCCCCCCCCCCccccccccCCCCCCCCCcc
Q 011024           23 FTMQEIALACRNAGRNPDLAGESLCDKQANASTSSIHPSTGEA------RGKESSKSSNSNISEKSFYANGKSKPPKTKW   96 (495)
Q Consensus        23 fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~sts~~~~s~~~~------~~~~~~~~~~~~~~e~~~~~~~~~k~~k~k~   96 (495)
                      .++.-.+..|...+.+.+.|.+.+...-+...+-.++....++      .+....+.++..++.   . ....+...   
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~s~~~~~~---~-~~~~~~~~---   88 (448)
T KOG2401|consen   16 LTLSLAAFSFSFKLVDLKAASEESSDEVDLGPPELSEMATSTSSADRLQYTIELLEPSPSSVSF---E-SLRARASD---   88 (448)
T ss_pred             chhccchhhhhhhhHhhhhcccccccccccCCCcchhhccccchhhhhcccccccCCCcccccc---c-ccccchhh---
Confidence            4566678899999999999999998887776555554333322      101111111111100   0 00011100   


Q ss_pred             eecccccccccccccccccCCCCCCCcccCCCCcCCCCCCCccccccCCCCCCCCCCccchhHHHHHHHHHhcCccccCH
Q 011024           97 HPVSGGTVSSFLGKDYVKPAQPTNGTGLASKPLKLDPKEFPMSALWGEETKPKQSKGDHLQKEMEDFLFKLLGEGFQLSR  176 (495)
Q Consensus        97 ~~vs~GtVSsviGK~y~r~~~~~~~~~~~~kp~k~~~k~~~~~~~w~~~~~~~~~~~~~~~~d~E~FL~~MLG~gf~L~~  176 (495)
                      ..+-.|+ --.+++.+..+....-.  ....+.+++. ++|+.. |.     -..+......-.++++-.+++......+
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 12345555544432211  1223333331 122222 11     1122333466778888889999999999


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHcccccccccccccccccccccccccCCcCcchhHhhhhhhccCCCCCcCCCCCCcccc
Q 011024          177 DVIREVLDSCGYDMQKSMSKLIDHSAETLGEKTKFLGKSSEKCMDICSTFGGSQRERKLQQLNSSGGRAKEDPNTNKGEL  256 (495)
Q Consensus       177 ~vIr~VL~~cGyDv~ks~d~LLd~s~~~~~k~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  256 (495)
                      ..+.+.|.+|.+...-+.....+...+ ..-                                    +.+.......+..
T Consensus       159 ~~~~~~~~~~~~~~~~~~n~~~~~~~~-~~~------------------------------------d~~~~~~~~~~~~  201 (448)
T KOG2401|consen  159 AFKIEDLPQKQVEGEDVDNCKVKNQIT-NSS------------------------------------DSKMATEPGLNDS  201 (448)
T ss_pred             hcchhhhccccccccccccceeecccc-ccc------------------------------------cccccccccccch
Confidence            999999999998776655544441111 000                                    0000000000111


Q ss_pred             cCCCcchhhhHHHHHHHhccCCCCCCcchhhHHHhhhccccCCccccCCCCCCcccccccccccccccCCCccchhHHHH
Q 011024          257 LKHPKDRNELQKEVFAALFSAPKKSDEFPEIMVKTKRRSKALGKVVSGPPEDLVPEYKANVVHLQQDNQNNNVEEDSFQH  336 (495)
Q Consensus       257 ~~~~~~~~~l~~~vle~lF~~~e~~~~~p~~~~~~~~~~~~~g~~v~~p~~d~~~~~~~~~~~s~q~n~~~~~~d~~Y~~  336 (495)
                      ......-..++.+.++.+|+.                     +.++-.|.               .+-.....-..+|+.
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~---------------~~~~~~~~~~~~~~~  245 (448)
T KOG2401|consen  202 LKKAYENVDSSEESVELLRKE---------------------GFSVDVPS---------------NAEKNSAKRLEELQK  245 (448)
T ss_pred             hhccccccCcchhhhhhhccC---------------------CCCccCcc---------------hhhcccccchhhcch
Confidence            111111123344555555544                     11111111               111112445568888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCeeecCCCCHH
Q 011024          337 LRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIFETSGRNRDTKNDLLLDLHDHGAK  416 (495)
Q Consensus       337 ~R~~A~~h~~~Rne~f~kAa~AY~kGd~a~A~~LSeqGk~~~~kmrean~~AA~~If~~r~~N~~~~~~~tIDLHGLhVk  416 (495)
                      .+........++...|..+.-|+..+....++.++.+.+......+.++.++....|...  +.. .....+|+|+++++
T Consensus       246 ~~~~~~~~~k~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~--~s~-~~~~~~~~~~~~~~  322 (448)
T KOG2401|consen  246 SQPEEDKAKKLRDQLYKSKRPAGSGKCLRKRHELSDKPRGVLQAEDDYNADELSDEFGNK--ESI-KSEREIDNQRLYKK  322 (448)
T ss_pred             hhhccchhhhHHHhhhhhcccccccchhhhhhhhhhhhhhhhhcccccchhhhhhhhhhh--hhh-hhhHHhhhhhHHHH
Confidence            888888899999999999999999999999999999999999999999999999999877  533 34688999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCC-CCcchHHHHHHHHHcCCceEee
Q 011024          417 EAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTT-KGGRRRRVMKLLEEESIEWTEE  472 (495)
Q Consensus       417 EAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g-~~k~kpAV~klL~eegi~~~e~  472 (495)
                      .|...+...+...... ...++.++.+.++|... ..++++++...+..+.+.-...
T Consensus       323 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~v~~~~~a~~~~~~~~~~~r~~~  378 (448)
T KOG2401|consen  323 AAEQKAQPEIEDAINL-QASELKPKVSLAVKGSYAVAKLKPATQWKLDNEEIERRSE  378 (448)
T ss_pred             HHHhhhhhhhhhhhhh-hhhhhchhhhhcccccchhhhcchHHHHHHhhhhhhcccc
Confidence            9999998887665433 23788999999999974 4568999999999988764443

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

Probab=96.00  E-value=0.015  Score=42.91  Aligned_cols=40  Identities=30%  Similarity=0.471  Sum_probs=33.3

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 011024          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (495)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (495)
                      ++-+.|..|+-   +++.++|+.||.+|++||+.+++.||+++
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=94.95  E-value=0.066  Score=39.49  Aligned_cols=40  Identities=23%  Similarity=0.382  Sum_probs=33.4

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 011024          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (495)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (495)
                      ++-+.|..|+-   +|+..+|+.+|-.|++||+.+++.||..+
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            45556666633   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=94.87  E-value=0.056  Score=38.45  Aligned_cols=35  Identities=26%  Similarity=0.462  Sum_probs=28.6

Q ss_pred             HHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 011024          163 FLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (495)
Q Consensus       163 FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (495)
                      -+..|..-||.  +..++++|..|++|+++|++.|++
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=89.99  E-value=0.33  Score=34.76  Aligned_cols=31  Identities=32%  Similarity=0.665  Sum_probs=25.3

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHH
Q 011024          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKL  197 (495)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~L  197 (495)
                      +=|..|   ||  +...+++.|-.|++||++|++.|
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=89.82  E-value=0.39  Score=33.92  Aligned_cols=25  Identities=16%  Similarity=0.311  Sum_probs=22.3

Q ss_pred             cCHHHHHHHHHhcCCcHHHHHHHHH
Q 011024          174 LSRDVIREVLDSCGYDMQKSMSKLI  198 (495)
Q Consensus       174 L~~~vIr~VL~~cGyDv~ks~d~LL  198 (495)
                      .+...++.+|-.|++|+++|++-|+
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.

>cd00194 UBA Ubiquitin Associated domain

Probab=83.81  E-value=1  Score=31.86  Aligned_cols=29  Identities=28%  Similarity=0.195  Sum_probs=26.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhc
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (495)
                      .-+|+-+++..|+...++|++.|++.|.+
T Consensus        10 ~mGf~~~~~~~AL~~~~~d~~~A~~~L~~   38 (38)
T cd00194          10 EMGFSREEARKALRATNNNVERAVEWLLE   38 (38)
T ss_pred             HcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            45699999999999999999999999863

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.

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

Probab=83.81  E-value=0.65  Score=38.85  Aligned_cols=39  Identities=21%  Similarity=0.344  Sum_probs=31.1

Q ss_pred             HHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          165 FKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       165 ~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      -.-||+... +-..|+++|=.|.|||+||++.||.-....
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 889999999999999999999999876543

; PDB: 1UFZ_A 3IZQ_1.

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

Probab=81.87  E-value=1.5  Score=32.77  Aligned_cols=26  Identities=19%  Similarity=0.524  Sum_probs=23.2

Q ss_pred             ccCHHHHHHHHHhcCCcHHHHHHHHH
Q 011024          173 QLSRDVIREVLDSCGYDMQKSMSKLI  198 (495)
Q Consensus       173 ~L~~~vIr~VL~~cGyDv~ks~d~LL  198 (495)
                      +-.+.++.-||..|+.||=+|||.+|
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=80.69  E-value=1.5  Score=31.30  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=22.7

Q ss_pred             ccCHHHHHHHHHHhCCCchhhhhhh
Q 011024           22 VFTMQEIALACRNAGRNPDLAGESL   46 (495)
Q Consensus        22 ~fSl~~ia~Ay~~A~~d~~~A~eiL   46 (495)
                      +|+-+++-.|+...++|++.|.++|
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	495
2vkc_A	135	NEDD4-binding protein 2; human BCL3 binding protei	2e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-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 = 54.1 bits (129), Expect = 7e-08
 Identities = 65/391 (16%), Positives = 110/391 (28%), Gaps = 106/391 (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-GKVVSGPPEDLVPEYKA---------------------NVVHLQQDNQNNNVEEDS 333
           K+L  K +   P+DL  E                        N  H+  D     + E S
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII-ESS 362

Query: 334 FQHLRTAVMEYRGTMKEYCKAAIDAFAQGDHVQAEKLLEQGKFFYEKAREADEESNKKIF 393
              L  A  EYR   K + + ++  F    H+    LL     +++  +        K+ 
Sbjct: 363 LNVLEPA--EYR---KMFDRLSV--FPPSAHI-PTILLS--LIWFDVIKSDVMVVVNKLH 412

Query: 394 ETSGRNRDTKN------DLLLDLHDHGAKEA 418
           + S   +  K        + L+L      E 
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEY 443

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	495
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	99.68
2d9i_A	96	NEDD4-binding protein 2; SMR domain, N4BP2, BCL-3	99.65
3qd7_X	137	Uncharacterized protein YDAL; alpha/beta/alpha fol	99.03
2zqe_A	83	MUTS2 protein; alpha/beta, ATP-binding, DNA-bindin	98.77
2dhy_A	67	CUE domain-containing protein 1; structural genomi	97.13
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	97.08
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	95.17
1p3q_Q	54	VPS9P, vacuolar protein sorting-associated protein	94.96
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	92.25
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	91.03
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	90.32
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	88.56
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	88.03
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	87.73
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	87.25
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	87.22
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	86.27
1ufz_A	83	Hypothetical protein BAB28515; HBS1-like domain, s	85.66
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	83.31
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	82.84
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	82.72
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	82.62
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	82.26
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	82.02
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	80.79
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	80.37

>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=99.68  E-value=5.8e-17  Score=133.55  Aligned_cols=76  Identities=25%  Similarity=0.279  Sum_probs=59.2

Q ss_pred             eeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CcchHHHHHHHHHcCCceEeeCCCeEEEEE
Q 011024          407 LLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTILIP  481 (495)
Q Consensus       407 tIDLHGLhVkEAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~eegi~~~e~~n~G~IlI~  481 (495)
                      +|||||++|+||+++|++.|..+..    ..+...++||||+|+||.++ +.++++|.++|++++|+|.+. |+|+|+|.
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 568999999999999999887 99999998


Q ss_pred             eC
Q 011024          482 LD  483 (495)
Q Consensus       482 L~  483 (495)
                      |+
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=99.65  E-value=2.6e-16  Score=133.22  Aligned_cols=82  Identities=23%  Similarity=0.251  Sum_probs=71.0

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CcchHHHHHHHHHcCCceEeeCCCeEE
Q 011024          404 NDLLLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTI  478 (495)
Q Consensus       404 ~~~tIDLHGLhVkEAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~eegi~~~e~~n~G~I  478 (495)
                      .+.+|||||++|+||++.|+..|..+..    ......++||||+|+||.++ +.++++|.+||++.+++|.+. ++|++
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 678889999999999999877 99999


Q ss_pred             EEEeCCCC
Q 011024          479 LIPLDKVN  486 (495)
Q Consensus       479 lI~L~g~~  486 (495)
                      +|.|....
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=99.03  E-value=2.9e-10  Score=102.78  Aligned_cols=83  Identities=16%  Similarity=0.219  Sum_probs=67.5

Q ss_pred             CCCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCC-cchHHHHHHHHHcCC--ceEee----CCCe
Q 011024          404 NDLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKG-GRRRRVMKLLEEESI--EWTEE----GNAG  476 (495)
Q Consensus       404 ~~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~-k~kpAV~klL~eegi--~~~e~----~n~G  476 (495)
                      .+.+|||||++++||+..|...|..+... +...++||+|+|.||.++. .++++|.++|.+..+  .|+..    .+.|
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            46899999999999999999999876533 3478999999999998765 578899999999875  46542    2899


Q ss_pred             EEEEEeCCCCC
Q 011024          477 TILIPLDKVNP  487 (495)
Q Consensus       477 ~IlI~L~g~~p  487 (495)
                      +++|.|.....
T Consensus       125 at~V~Lr~~~~  135 (137)
T 3qd7_X          125 ACYVALRKTAQ  135 (137)
T ss_dssp             EEEEEECC---
T ss_pred             EEEEEEEchhh
Confidence            99999987543

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

Probab=98.77  E-value=2e-08  Score=83.33  Aligned_cols=73  Identities=15%  Similarity=0.248  Sum_probs=60.7

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcCCCCcceEEEEEecCCCCCCCCcchHHHHHHHHHcCC--ceEeeC----CCeEE
Q 011024          405 DLLLDLHDHGAKEAIRLLKCHLSSLSGIPTIKYLKVILEMNDEDTTKGGRRRRVMKLLEEESI--EWTEEG----NAGTI  478 (495)
Q Consensus       405 ~~tIDLHGLhVkEAi~iLk~~L~~l~~~~s~~~LrVItG~G~HS~g~~k~kpAV~klL~eegi--~~~e~~----n~G~I  478 (495)
                      +.+|||||+.++||...|...|..+... ....++||+|+|.     +.++++|.++|.+...  .|+...    +.|++
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     4689999999999875  466532    57999


Q ss_pred             EEEeC
Q 011024          479 LIPLD  483 (495)
Q Consensus       479 lI~L~  483 (495)
                      +|.|.
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=97.13  E-value=0.00075  Score=54.19  Aligned_cols=47  Identities=15%  Similarity=0.200  Sum_probs=40.9

Q ss_pred             cchhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          155 HLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       155 ~~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      ...+++.+.|-.|+-   +|+..||+.||..||+||+.+++.||.++.-.
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=97.08  E-value=0.00094  Score=52.26  Aligned_cols=48  Identities=17%  Similarity=0.259  Sum_probs=40.1

Q ss_pred             cchhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccccc
Q 011024          155 HLQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETL  205 (495)
Q Consensus       155 ~~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~~  205 (495)
                      ...++.-+.|-.|+-   .++..+|+.||..|++||+.+++.||.++....
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=95.17  E-value=0.03  Score=42.31  Aligned_cols=42  Identities=12%  Similarity=0.232  Sum_probs=36.4

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      ++=.++|.-|+=   .++..+||-||..|++|++.|++.||.+..
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=94.96  E-value=0.0098  Score=45.92  Aligned_cols=43  Identities=14%  Similarity=0.237  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      ++++=+=|-.|+-   +||.+||++||-.++|++..++|.||.||.
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=92.25  E-value=0.3  Score=39.61  Aligned_cols=36  Identities=22%  Similarity=0.401  Sum_probs=29.8

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      +=|..|   ||  +++.++..|..|++|+++|++.||+-..
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=91.03  E-value=0.3  Score=36.35  Aligned_cols=38  Identities=16%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             HHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 011024          160 MEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (495)
Q Consensus       160 ~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (495)
                      -|+-|..+..=||  ++..++..|..|++|+++|++.|+.
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=90.32  E-value=0.45  Score=34.07  Aligned_cols=32  Identities=28%  Similarity=0.673  Sum_probs=26.6

Q ss_pred             HhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcc
Q 011024          167 LLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDH  200 (495)
Q Consensus       167 MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~  200 (495)
                      +..=||  +++.++..|..|++|++.|++.|++.
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            333356  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=88.56  E-value=0.52  Score=32.77  Aligned_cols=32  Identities=25%  Similarity=0.327  Sum_probs=26.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHH
Q 011024          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLI  198 (495)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LL  198 (495)
                      +-|..|   ||  +...++..|..|++|++.|++.|+
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=88.03  E-value=0.36  Score=36.43  Aligned_cols=31  Identities=10%  Similarity=0.130  Sum_probs=28.0

Q ss_pred             cCHHHHHHHHHHhCCCchhhhhhhhcccCCC
Q 011024           23 FTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (495)
Q Consensus        23 fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (495)
                      ++..+|.+++..|+||+|.|.++|..+...+
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            6889999999999999999999999996543

>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=87.73  E-value=1.4  Score=36.59  Aligned_cols=41  Identities=24%  Similarity=0.325  Sum_probs=34.5

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 011024          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (495)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (495)
                      ++.=+=|..|   ||  ++..++..|.+|+.|+++|++.|+...+.
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=87.25  E-value=0.85  Score=35.76  Aligned_cols=36  Identities=19%  Similarity=0.486  Sum_probs=29.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      +-|..|   ||  ++..++..|..|++|++.|++.||.-..
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=87.22  E-value=0.8  Score=39.62  Aligned_cols=41  Identities=15%  Similarity=0.340  Sum_probs=33.9

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      .++| +.|.-|-    ..+.+.+|.+|-.|++|+.+|++.||+--.
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=86.27  E-value=0.47  Score=36.44  Aligned_cols=34  Identities=21%  Similarity=0.173  Sum_probs=30.3

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhcccCCC
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (495)
                      +-+|+-+++-.|...|++|++.|+.||......+
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            6679999999999999999999999999776543

>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=85.66  E-value=0.84  Score=38.03  Aligned_cols=37  Identities=22%  Similarity=0.536  Sum_probs=30.4

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      +-..|||  -++...++++.=.|.||++||||.+|+.+.
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=83.31  E-value=1.8  Score=33.86  Aligned_cols=36  Identities=17%  Similarity=0.138  Sum_probs=31.1

Q ss_pred             ccCCccCHHHHHHHHHHhCCCchhhhhhhhcccCCC
Q 011024           18 LNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (495)
Q Consensus        18 l~gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (495)
                      |..-+|+-+++..|++..++|++.|.+.|..-..+.
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

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

Probab=82.84  E-value=0.73  Score=35.26  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=28.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhcc
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCDK   49 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~   49 (495)
                      +-+||-+++-.|...|++|++.|+.||...
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

>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=82.72  E-value=1  Score=34.62  Aligned_cols=33  Identities=21%  Similarity=0.467  Sum_probs=27.8

Q ss_pred             ccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          171 GFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       171 gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      || -|...-..+|.++||||+++++.||.+..-+
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

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

Probab=82.62  E-value=1.1  Score=36.27  Aligned_cols=44  Identities=14%  Similarity=0.332  Sum_probs=33.9

Q ss_pred             chhHHHHHHHHHhcCcc-ccCHHHHHHHHHhcCCcHHHHHHHHHcc
Q 011024          156 LQKEMEDFLFKLLGEGF-QLSRDVIREVLDSCGYDMQKSMSKLIDH  200 (495)
Q Consensus       156 ~~~d~E~FL~~MLG~gf-~L~~~vIr~VL~~cGyDv~ks~d~LLd~  200 (495)
                      ...++++= .+++-|=| .|+.+.|+.+|..|++|||..+..||+=
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=82.26  E-value=1.4  Score=35.73  Aligned_cols=37  Identities=19%  Similarity=0.181  Sum_probs=31.5

Q ss_pred             hccCCccCHHHHHHHHHHhCCCchhhhhhhhcccCCC
Q 011024           17 ALNGSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (495)
Q Consensus        17 ~l~gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (495)
                      -|..=+|+-+++..|++.+++|++.|.++|.+-+++.
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=82.02  E-value=2.8  Score=31.49  Aligned_cols=42  Identities=21%  Similarity=0.352  Sum_probs=31.4

Q ss_pred             HHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 011024          159 EMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (495)
Q Consensus       159 d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (495)
                      +.++-|-.+..=||. ++..++.+|..|+.|+++|++.|+...
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            344445444444552 788999999999999999999999753

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

Probab=80.79  E-value=0.98  Score=32.24  Aligned_cols=29  Identities=28%  Similarity=0.226  Sum_probs=26.4

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhc
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (495)
                      .-+|+-+++..|++..++|++.|.+.|.+
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            55699999999999999999999999974

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

Probab=80.37  E-value=1.1  Score=31.14  Aligned_cols=28  Identities=29%  Similarity=0.164  Sum_probs=25.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhh
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLC   47 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~   47 (495)
                      .-+|+-+++..|+...++|++.|.+.|.
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

---

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	495
d2d9ia1	83	Nedd4-binding protein 2 {Human (Homo sapiens) [Tax	99.75
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	97.29
d1mn3a_	54	Vacuolar protein sorting-associated protein vps9 {	97.12
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	92.19
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	90.76
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	86.28
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	86.1
d1ufza_	83	HBS1-like protein {Mouse (Mus musculus) [TaxId: 10	84.82
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	83.58
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	82.99
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	80.62
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	80.45

>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=99.75  E-value=6.8e-19  Score=143.76  Aligned_cols=78  Identities=24%  Similarity=0.279  Sum_probs=67.6

Q ss_pred             CCeeecCCCCHHHHHHHHHHHHHhhcC----CCCcceEEEEEecCCCCCCC-CcchHHHHHHHHHcCCceEeeCCCeEEE
Q 011024          405 DLLLDLHDHGAKEAIRLLKCHLSSLSG----IPTIKYLKVILEMNDEDTTK-GGRRRRVMKLLEEESIEWTEEGNAGTIL  479 (495)
Q Consensus       405 ~~tIDLHGLhVkEAi~iLk~~L~~l~~----~~s~~~LrVItG~G~HS~g~-~k~kpAV~klL~eegi~~~e~~n~G~Il  479 (495)
                      +++|||||++|.||++.|++.|..+..    ......|+||||+|+||.++ +.++++|.++|++++|.|.+. |+|+|+
T Consensus         1 q~~iDLHG~~~~eA~~~l~~~l~~~~~~~~~~~~~~~l~IItG~G~hS~~g~~~lk~~V~~~L~~~~~~~~e~-~~G~~~   79 (83)
T d2d9ia1           1 QNVLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEI-KPGCLK   79 (83)
T ss_dssp             CCEEECTTSCHHHHHHHHHHHHHHHHHHHHHTTCCSEEEEECCCSGGGTTCTTCHHHHHHHHHHHTTCCEECC-STTCEE
T ss_pred             CCeEECCCCCHHHHHHHHHHHHHHHHHhhhhcCCceEEEEEECCCCCCCCCcchHHHHHHHHHHHCCCceecC-CCcEEE
Confidence            378999999999999999999976532    23457899999999999966 568889999999999999877 999999


Q ss_pred             EEeC
Q 011024          480 IPLD  483 (495)
Q Consensus       480 I~L~  483 (495)
                      |.|.
T Consensus        80 V~lk   83 (83)
T d2d9ia1          80 VMLK   83 (83)
T ss_dssp             EECC
T ss_pred             EEeC
Confidence            9874

>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=97.29  E-value=0.0002  Score=54.36  Aligned_cols=47  Identities=19%  Similarity=0.331  Sum_probs=40.1

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccccc
Q 011024          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAETLG  206 (495)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~~~  206 (495)
                      .|+.-+.|..|+-   .++.+||+.||-.|+|+|+.++|.||.|+.-..+
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=97.12  E-value=0.00024  Score=53.09  Aligned_cols=43  Identities=14%  Similarity=0.220  Sum_probs=38.5

Q ss_pred             hhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccc
Q 011024          157 QKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSA  202 (495)
Q Consensus       157 ~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~  202 (495)
                      ++++-+-|..|+-   .||.+||++||-.|+|+++.++|.||.+|.
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=92.19  E-value=0.097  Score=40.47  Aligned_cols=43  Identities=19%  Similarity=0.418  Sum_probs=34.4

Q ss_pred             chhHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          156 LQKEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       156 ~~~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      .++.+++ |+.|   ||  +++..+..|-.|++||+.|+|.||+.+...
T Consensus        29 ~ee~i~~-L~~M---GF--~~~~a~~AL~~~~~n~e~A~~~Ll~~~~ps   71 (73)
T d1vg5a_          29 SEEQIQK-LVAM---GF--DRTQVEVALAAADDDLTVAVEILMSQSGPS   71 (73)
T ss_dssp             CHHHHHH-HHTT---TC--CHHHHHHHHHHHTSCHHHHHHHHHTCSCSS
T ss_pred             CHHHHHH-HHHh---CC--CHHHHHHHHHHhCCCHHHHHHHHHhCCCCC
Confidence            3444444 5555   66  899999999999999999999999987654

>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=90.76  E-value=0.11  Score=39.12  Aligned_cols=39  Identities=15%  Similarity=0.364  Sum_probs=31.3

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      |-.+..=||  ++..+++.|-.||+||+.|++.||..+..+
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  799999999999999999999999876544

>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=86.28  E-value=0.23  Score=38.25  Aligned_cols=34  Identities=18%  Similarity=0.183  Sum_probs=31.0

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhcccCCC
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCDKQANA   53 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~~~~~~   53 (495)
                      .=+|+-+++..|++.+++|++.|.++|.+-++.+
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=86.10  E-value=0.21  Score=34.52  Aligned_cols=29  Identities=24%  Similarity=0.217  Sum_probs=26.7

Q ss_pred             CCccCHHHHHHHHHHhCCCchhhhhhhhc
Q 011024           20 GSVFTMQEIALACRNAGRNPDLAGESLCD   48 (495)
Q Consensus        20 gs~fSl~~ia~Ay~~A~~d~~~A~eiL~~   48 (495)
                      .-+|+-+++-.|.+.+++|++.|.+.|.+
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            66699999999999999999999999974

>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=84.82  E-value=0.49  Score=37.42  Aligned_cols=39  Identities=21%  Similarity=0.501  Sum_probs=32.8

Q ss_pred             HHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHcccccc
Q 011024          164 LFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAET  204 (495)
Q Consensus       164 L~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~~  204 (495)
                      +-..|||  -++...+.++.=.|.|||+||||.+|+...+.
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=83.58  E-value=0.63  Score=35.66  Aligned_cols=41  Identities=27%  Similarity=0.478  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 011024          158 KEMEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (495)
Q Consensus       158 ~d~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (495)
                      +++-+=|..|   |  .++..++..|-.||.|++.|++.||+....
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=82.99  E-value=0.52  Score=35.53  Aligned_cols=29  Identities=17%  Similarity=0.410  Sum_probs=26.4

Q ss_pred             ccCHHHHHHHHHhcCCcHHHHHHHHHccc
Q 011024          173 QLSRDVIREVLDSCGYDMQKSMSKLIDHS  201 (495)
Q Consensus       173 ~L~~~vIr~VL~~cGyDv~ks~d~LLd~s  201 (495)
                      .|+.+.|+.+|+.+|||+++.+..||+=+
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=80.62  E-value=1.1  Score=33.08  Aligned_cols=37  Identities=16%  Similarity=0.443  Sum_probs=30.5

Q ss_pred             HHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHccccc
Q 011024          162 DFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLIDHSAE  203 (495)
Q Consensus       162 ~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd~s~~  203 (495)
                      +=|+.|   |  .++...+..|-+|++||++|++.||+....
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=80.45  E-value=0.47  Score=32.70  Aligned_cols=38  Identities=16%  Similarity=0.319  Sum_probs=29.6

Q ss_pred             HHHHHHHHhcCccccCHHHHHHHHHhcCCcHHHHHHHHHc
Q 011024          160 MEDFLFKLLGEGFQLSRDVIREVLDSCGYDMQKSMSKLID  199 (495)
Q Consensus       160 ~E~FL~~MLG~gf~L~~~vIr~VL~~cGyDv~ks~d~LLd  199 (495)
                      .|+-+-++..=|  .+++.++..|-.|++|++.|++.||.
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